[ { "id": "P38070-1.94.94", "start_pos": 94, "end_pos": 94, "uniprot_canonical_ac": "P38070-1", "length": 525, "uniprot_id": "YPK3_YEAST", "protein_name": "Serine/threonine-protein kinase YPK3", "refseq_ac": "NP_009584", "refseq_name": "putative protein kinase YPK3", "gene_name": "YPK3", "gene_names_uniprotkb": "YPK3; YBR0312", "gene_names_refseq": "YPK3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38070", "url": "https://www.uniprot.org/uniprotkb/P38070" } ], "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": "P38070", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38070" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000232", "url": "https://www.yeastgenome.org/locus/S000000232", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38070", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38070", "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": "AYSKFPILTPPNTRRFSITG", "down_seq": "DAMRTNTNRLSITPQDIISS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000232", "url": "https://www.yeastgenome.org/locus/S000000232" }, { "database": "iPTMnet", "id": "P38070", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38070" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser94" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "13", "end_pos": "13" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38070-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38070-1.90.90", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38070-1.105.105", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38070-1.107.107", "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": "P38071-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P38071-1", "length": 380, "uniprot_id": "ETR1_YEAST", "protein_name": "Enoyl-[acyl-carrier-protein] reductase, mitochondrial", "refseq_ac": "NP_009582", "refseq_name": "enoyl-[acyl-carrier-protein] reductase", "gene_name": "ETR1", "gene_names_uniprotkb": "ETR1; MRF1'; MRF1; YBR0310", "gene_names_refseq": "ETR1; MRF1'; MRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure-function analysis of enoyl thioester reductase involved in mitochondrial maintenance.", "journal": "Journal of molecular biology", "date": "2003-03-14", "authors": "Airenne Tomi T, Torkko Juha M, Van den plas Sam, Sormunen Raija T, Kastaniotis Alexander J, Wierenga Rik K, Hiltunen J Kalervo", "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" } ], "reference": [ { "type": "PubMed", "id": "12614607", "url": "https://glygen.org/publication/PubMed/12614607" } ] } ], "crossref": [ { "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12614607", "url": "https://glygen.org/publication/PubMed/12614607", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "VLKTLAFPINPSDINQLQGV", "down_seq": "PSRPEKTYDYSTDEPAAIAG", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "N", "comment": "0.1% of catalytic activity. No specific ARS1 binding.", "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" }, { "database": "PubMed", "id": "12614607", "url": "https://glygen.org/publication/PubMed/12614607" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "73", "end_pos": "73" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "43", "end_pos": "43" } ] } ], "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": "P38071-1.135.135", "start_pos": 135, "end_pos": 135, "uniprot_canonical_ac": "P38071-1", "length": 380, "uniprot_id": "ETR1_YEAST", "protein_name": "Enoyl-[acyl-carrier-protein] reductase, mitochondrial", "refseq_ac": "NP_009582", "refseq_name": "enoyl-[acyl-carrier-protein] reductase", "gene_name": "ETR1", "gene_names_uniprotkb": "ETR1; MRF1'; MRF1; YBR0310", "gene_names_refseq": "ETR1; MRF1'; MRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" } ], "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": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" }, { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" } ], "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": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230", "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": "GDRVIPLQANQGTWSNYRVF", "down_seq": "SSSDLIKVNDLDLFSAATVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser135" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "73", "end_pos": "73" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "43", "end_pos": "43" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38071-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38071-1.137.137", "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": "P38071-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "P38071-1", "length": 380, "uniprot_id": "ETR1_YEAST", "protein_name": "Enoyl-[acyl-carrier-protein] reductase, mitochondrial", "refseq_ac": "NP_009582", "refseq_name": "enoyl-[acyl-carrier-protein] reductase", "gene_name": "ETR1", "gene_names_uniprotkb": "ETR1; MRF1'; MRF1; YBR0310", "gene_names_refseq": "ETR1; MRF1'; MRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071", "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": "DRVIPLQANQGTWSNYRVFS", "down_seq": "SSDLIKVNDLDLFSAATVSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230" }, { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser136" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "73", "end_pos": "73" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "43", "end_pos": "43" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38071-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38071-1.137.137", "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": "P38071-1.137.137", "start_pos": 137, "end_pos": 137, "uniprot_canonical_ac": "P38071-1", "length": 380, "uniprot_id": "ETR1_YEAST", "protein_name": "Enoyl-[acyl-carrier-protein] reductase, mitochondrial", "refseq_ac": "NP_009582", "refseq_name": "enoyl-[acyl-carrier-protein] reductase", "gene_name": "ETR1", "gene_names_uniprotkb": "ETR1; MRF1'; MRF1; YBR0310", "gene_names_refseq": "ETR1; MRF1'; MRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071", "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": "RVIPLQANQGTWSNYRVFSS", "down_seq": "SDLIKVNDLDLFSAATVSVN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230" }, { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser137" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "73", "end_pos": "73" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "43", "end_pos": "43" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38071-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38071-1.136.136", "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": "P38071-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "P38071-1", "length": 380, "uniprot_id": "ETR1_YEAST", "protein_name": "Enoyl-[acyl-carrier-protein] reductase, mitochondrial", "refseq_ac": "NP_009582", "refseq_name": "enoyl-[acyl-carrier-protein] reductase", "gene_name": "ETR1", "gene_names_uniprotkb": "ETR1; MRF1'; MRF1; YBR0310", "gene_names_refseq": "ETR1; MRF1'; MRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071", "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": "SKILGENARVRLALNSVGGK", "down_seq": "SASIARKLENNALMLTYGGM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230" }, { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser266" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "73", "end_pos": "73" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "43", "end_pos": "43" } ] } ], "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": "P38071-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P38071-1", "length": 380, "uniprot_id": "ETR1_YEAST", "protein_name": "Enoyl-[acyl-carrier-protein] reductase, mitochondrial", "refseq_ac": "NP_009582", "refseq_name": "enoyl-[acyl-carrier-protein] reductase", "gene_name": "ETR1", "gene_names_uniprotkb": "ETR1; MRF1'; MRF1; YBR0310", "gene_names_refseq": "ETR1; MRF1'; MRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071", "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": "ENNALMLTYGGMSKQPVTLP", "down_seq": "SLHIFKGLTSKGYWVTEKNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230" }, { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr295" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "73", "end_pos": "73" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "43", "end_pos": "43" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38071-1.296.296", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38071-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P38071-1", "length": 380, "uniprot_id": "ETR1_YEAST", "protein_name": "Enoyl-[acyl-carrier-protein] reductase, mitochondrial", "refseq_ac": "NP_009582", "refseq_name": "enoyl-[acyl-carrier-protein] reductase", "gene_name": "ETR1", "gene_names_uniprotkb": "ETR1; MRF1'; MRF1; YBR0310", "gene_names_refseq": "ETR1; MRF1'; MRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071", "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": "NNALMLTYGGMSKQPVTLPT", "down_seq": "LHIFKGLTSKGYWVTEKNKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230" }, { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser296" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "73", "end_pos": "73" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "43", "end_pos": "43" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38071-1.295.295", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38071-1.339.339", "start_pos": 339, "end_pos": 339, "uniprot_canonical_ac": "P38071-1", "length": 380, "uniprot_id": "ETR1_YEAST", "protein_name": "Enoyl-[acyl-carrier-protein] reductase, mitochondrial", "refseq_ac": "NP_009582", "refseq_name": "enoyl-[acyl-carrier-protein] reductase", "gene_name": "ETR1", "gene_names_uniprotkb": "ETR1; MRF1'; MRF1; YBR0310", "gene_names_refseq": "ETR1; MRF1'; MRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" } ], "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": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" }, { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" } ], "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": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230", "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": "QSKIDTISDFIKMYNYGHII", "down_seq": "PRDEIETLTWNTNTTTDEQL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" }, { "database": "SGD", "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser339" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "73", "end_pos": "73" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "43", "end_pos": "43" } ] } ], "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": "P38071-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P38071-1", "length": 380, "uniprot_id": "ETR1_YEAST", "protein_name": "Enoyl-[acyl-carrier-protein] reductase, mitochondrial", "refseq_ac": "NP_009582", "refseq_name": "enoyl-[acyl-carrier-protein] reductase", "gene_name": "ETR1", "gene_names_uniprotkb": "ETR1; MRF1'; MRF1; YBR0310", "gene_names_refseq": "ETR1; MRF1'; MRF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38071", "url": "https://www.uniprot.org/uniprotkb/P38071" } ], "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": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071", "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": "LIYSTHEVEDCTKVLSVKNY", "down_seq": "PKQDLSQSIVLKTLAFPINP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000230", "url": "https://www.yeastgenome.org/locus/S000000230" }, { "database": "iPTMnet", "id": "P38071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38071" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr43" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "73", "end_pos": "73" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "43", "end_pos": "43" } ] } ], "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": "P38075-1.144.144", "start_pos": 144, "end_pos": 144, "uniprot_canonical_ac": "P38075-1", "length": 228, "uniprot_id": "PDX3_YEAST", "protein_name": "Pyridoxamine 5'-phosphate oxidase", "refseq_ac": "NP_009591", "refseq_name": "pyridoxamine-phosphate oxidase PDX3", "gene_name": "PDX3", "gene_names_uniprotkb": "PDX3; YBR0321", "gene_names_refseq": "PDX3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38075", "url": "https://www.uniprot.org/uniprotkb/P38075" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000239", "url": "https://www.yeastgenome.org/locus/S000000239", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075", "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": "ITEHVNRETSERYFKTRPRG", "down_seq": "KIGAWASRQSDVIKNREELD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000239", "url": "https://www.yeastgenome.org/locus/S000000239" }, { "database": "iPTMnet", "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser144" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "25", "end_pos": "25" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38075-1.151.151", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38075-1.154.154", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38075-1.151.151", "start_pos": 151, "end_pos": 151, "uniprot_canonical_ac": "P38075-1", "length": 228, "uniprot_id": "PDX3_YEAST", "protein_name": "Pyridoxamine 5'-phosphate oxidase", "refseq_ac": "NP_009591", "refseq_name": "pyridoxamine-phosphate oxidase PDX3", "gene_name": "PDX3", "gene_names_uniprotkb": "PDX3; YBR0321", "gene_names_refseq": "PDX3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38075", "url": "https://www.uniprot.org/uniprotkb/P38075" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000239", "url": "https://www.yeastgenome.org/locus/S000000239", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075", "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": "ETSERYFKTRPRGSKIGAWA", "down_seq": "RQSDVIKNREELDELTQKNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000239", "url": "https://www.yeastgenome.org/locus/S000000239" }, { "database": "iPTMnet", "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser151" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "25", "end_pos": "25" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38075-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38075-1.154.154", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38075-1.154.154", "start_pos": 154, "end_pos": 154, "uniprot_canonical_ac": "P38075-1", "length": 228, "uniprot_id": "PDX3_YEAST", "protein_name": "Pyridoxamine 5'-phosphate oxidase", "refseq_ac": "NP_009591", "refseq_name": "pyridoxamine-phosphate oxidase PDX3", "gene_name": "PDX3", "gene_names_uniprotkb": "PDX3; YBR0321", "gene_names_refseq": "PDX3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38075", "url": "https://www.uniprot.org/uniprotkb/P38075" } ], "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": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" } ], "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": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000239", "url": "https://www.yeastgenome.org/locus/S000000239", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075", "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": "ERYFKTRPRGSKIGAWASRQ", "down_seq": "DVIKNREELDELTQKNTERF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000239", "url": "https://www.yeastgenome.org/locus/S000000239" }, { "database": "iPTMnet", "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser154" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "25", "end_pos": "25" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38075-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38075-1.151.151", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38075-1.216.216", "start_pos": 216, "end_pos": 216, "uniprot_canonical_ac": "P38075-1", "length": 228, "uniprot_id": "PDX3_YEAST", "protein_name": "Pyridoxamine 5'-phosphate oxidase", "refseq_ac": "NP_009591", "refseq_name": "pyridoxamine-phosphate oxidase PDX3", "gene_name": "PDX3", "gene_names_uniprotkb": "PDX3; YBR0321", "gene_names_refseq": "PDX3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38075", "url": "https://www.uniprot.org/uniprotkb/P38075" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000239", "url": "https://www.yeastgenome.org/locus/S000000239", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075", "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": "IEFWQGRPSRLHDRFVYRRK", "down_seq": "ENDPWKVVRLAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000239", "url": "https://www.yeastgenome.org/locus/S000000239" }, { "database": "iPTMnet", "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr216" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "25", "end_pos": "25" } ] } ], "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": "P38075-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "P38075-1", "length": 228, "uniprot_id": "PDX3_YEAST", "protein_name": "Pyridoxamine 5'-phosphate oxidase", "refseq_ac": "NP_009591", "refseq_name": "pyridoxamine-phosphate oxidase PDX3", "gene_name": "PDX3", "gene_names_uniprotkb": "PDX3; YBR0321", "gene_names_refseq": "PDX3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38075", "url": "https://www.uniprot.org/uniprotkb/P38075" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000239", "url": "https://www.yeastgenome.org/locus/S000000239", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075", "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": "AEETQKPIIFAPETYQYDKF", "down_seq": "LNEKQLTDDPIDLFTKWFNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000239", "url": "https://www.yeastgenome.org/locus/S000000239" }, { "database": "iPTMnet", "id": "P38075", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38075" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr25" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "144", "end_pos": "144" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "25", "end_pos": "25" } ] } ], "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": "P38077-1.273.273", "start_pos": 273, "end_pos": 273, "uniprot_canonical_ac": "P38077-1", "length": 311, "uniprot_id": "ATPG_YEAST", "protein_name": "ATP synthase subunit gamma, mitochondrial", "refseq_ac": "NP_009595", "refseq_name": "F1F0 ATP synthase subunit gamma", "gene_name": "ATP3", "gene_names_uniprotkb": "ATP3; ATP3a; ATP3b; YBR0408", "gene_names_refseq": "ATP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cloning of the yeast ATP3 gene coding for the gamma-subunit of F1 and characterization of atp3 mutants.", "journal": "The Journal of biological chemistry", "date": "1994-10-21", "authors": "Paul M F, Ackerman S, Yue J, Arselin G, Velours J, Tzagolof A, Ackermann S [corrected to Ackerman S ]", "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "reference": [ { "type": "PubMed", "id": "7929329", "url": "https://glygen.org/publication/PubMed/7929329" } ] } ], "crossref": [ { "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7929329", "url": "https://glygen.org/publication/PubMed/7929329", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "TAMAQGYAAEISARRNAMDN", "down_seq": "SKNAGDMINRYSILYNRTRQ", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "V", "comment": "Lower activity.", "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" }, { "database": "PubMed", "id": "7929329", "url": "https://glygen.org/publication/PubMed/7929329" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "303", "end_pos": "303" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "7", "end_pos": "7" } ] } ], "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": "P38077-1.297.297", "start_pos": 297, "end_pos": 297, "uniprot_canonical_ac": "P38077-1", "length": 311, "uniprot_id": "ATPG_YEAST", "protein_name": "ATP synthase subunit gamma, mitochondrial", "refseq_ac": "NP_009595", "refseq_name": "F1F0 ATP synthase subunit gamma", "gene_name": "ATP3", "gene_names_uniprotkb": "ATP3; ATP3a; ATP3b; YBR0408", "gene_names_refseq": "ATP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutations in the mitochondrial ATP synthase gamma subunit suppress a slow-growth phenotype of yme1 yeast lacking mitochondrial DNA.", "journal": "Genetics", "date": "1995-06", "authors": "Weber E R, Rooks R S, Shafer K S, Chase J W, Thorsness P E", "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "reference": [ { "type": "PubMed", "id": "7498726", "url": "https://glygen.org/publication/PubMed/7498726" } ] } ], "crossref": [ { "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7498726", "url": "https://glygen.org/publication/PubMed/7498726", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "AGDMINRYSILYNRTRQAVI", "down_seq": "NELVDIITGASSLG", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "In ATP3-5; dominant suppressor of the slow-growth phenotype of yme1 strains lacking mitochondrial DNA.", "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" }, { "database": "PubMed", "id": "7498726", "url": "https://glygen.org/publication/PubMed/7498726" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "303", "end_pos": "303" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38077-1.303.303", "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": "P38077-1.303.303", "start_pos": 303, "end_pos": 303, "uniprot_canonical_ac": "P38077-1", "length": 311, "uniprot_id": "ATPG_YEAST", "protein_name": "ATP synthase subunit gamma, mitochondrial", "refseq_ac": "NP_009595", "refseq_name": "F1F0 ATP synthase subunit gamma", "gene_name": "ATP3", "gene_names_uniprotkb": "ATP3; ATP3a; ATP3b; YBR0408", "gene_names_refseq": "ATP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mutations in the mitochondrial ATP synthase gamma subunit suppress a slow-growth phenotype of yme1 yeast lacking mitochondrial DNA.", "journal": "Genetics", "date": "1995-06", "authors": "Weber E R, Rooks R S, Shafer K S, Chase J W, Thorsness P E", "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "reference": [ { "type": "PubMed", "id": "7498726", "url": "https://glygen.org/publication/PubMed/7498726" } ] } ], "crossref": [ { "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7498726", "url": "https://glygen.org/publication/PubMed/7498726", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "RYSILYNRTRQAVITNELVD", "down_seq": "ITGASSLG", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "T", "comment": "In ATP3-1; dominant suppressor of the slow-growth phenotype of yme1 strains lacking mitochondrial DNA.", "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" }, { "database": "PubMed", "id": "7498726", "url": "https://glygen.org/publication/PubMed/7498726" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "303", "end_pos": "303" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38077-1.297.297", "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": "P38077-1.122.122", "start_pos": 122, "end_pos": 122, "uniprot_canonical_ac": "P38077-1", "length": 311, "uniprot_id": "ATPG_YEAST", "protein_name": "ATP synthase subunit gamma, mitochondrial", "refseq_ac": "NP_009595", "refseq_name": "F1F0 ATP synthase subunit gamma", "gene_name": "ATP3", "gene_names_uniprotkb": "ATP3; ATP3a; ATP3b; YBR0408", "gene_names_refseq": "ATP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077", "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": "APKELIVAITSDKGLCGSIH", "down_seq": "QLAKAVRRHLNDQPNADIVT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243" }, { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser122" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "303", "end_pos": "303" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38077-1.176.176", "start_pos": 176, "end_pos": 176, "uniprot_canonical_ac": "P38077-1", "length": 311, "uniprot_id": "ATPG_YEAST", "protein_name": "ATP synthase subunit gamma, mitochondrial", "refseq_ac": "NP_009595", "refseq_name": "F1F0 ATP synthase subunit gamma", "gene_name": "ATP3", "gene_names_uniprotkb": "ATP3; ATP3a; ATP3b; YBR0408", "gene_names_refseq": "ATP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "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": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077", "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": "PNNIKLSINGIGKDAPTFQE", "down_seq": "ALIADKLLSVMKAGTYPKIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243" }, { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Ser176" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "303", "end_pos": "303" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P38077-1.185.185", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38077-1.185.185", "start_pos": 185, "end_pos": 185, "uniprot_canonical_ac": "P38077-1", "length": 311, "uniprot_id": "ATPG_YEAST", "protein_name": "ATP synthase subunit gamma, mitochondrial", "refseq_ac": "NP_009595", "refseq_name": "F1F0 ATP synthase subunit gamma", "gene_name": "ATP3", "gene_names_uniprotkb": "ATP3; ATP3a; ATP3b; YBR0408", "gene_names_refseq": "ATP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "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": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077", "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": "GIGKDAPTFQESALIADKLL", "down_seq": "VMKAGTYPKISIFYNDPVSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243" }, { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Ser185" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "303", "end_pos": "303" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38077-1.176.176", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38077-1.224.224", "start_pos": 224, "end_pos": 224, "uniprot_canonical_ac": "P38077-1", "length": 311, "uniprot_id": "ATPG_YEAST", "protein_name": "ATP synthase subunit gamma, mitochondrial", "refseq_ac": "NP_009595", "refseq_name": "F1F0 ATP synthase subunit gamma", "gene_name": "ATP3", "gene_names_uniprotkb": "ATP3; ATP3a; ATP3b; YBR0408", "gene_names_refseq": "ATP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077", "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": "SSLSFEPSEKPIFNAKTIEQ", "down_seq": "PSFGKFEIDTDANVPRDLFE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243" }, { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser224" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "303", "end_pos": "303" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38077-1.226.226", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38077-1.226.226", "start_pos": 226, "end_pos": 226, "uniprot_canonical_ac": "P38077-1", "length": 311, "uniprot_id": "ATPG_YEAST", "protein_name": "ATP synthase subunit gamma, mitochondrial", "refseq_ac": "NP_009595", "refseq_name": "F1F0 ATP synthase subunit gamma", "gene_name": "ATP3", "gene_names_uniprotkb": "ATP3; ATP3a; ATP3b; YBR0408", "gene_names_refseq": "ATP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077", "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": "LSFEPSEKPIFNAKTIEQSP", "down_seq": "FGKFEIDTDANVPRDLFEYT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243" }, { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser226" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "303", "end_pos": "303" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38077-1.224.224", "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": "P38077-1.65.65", "start_pos": 65, "end_pos": 65, "uniprot_canonical_ac": "P38077-1", "length": 311, "uniprot_id": "ATPG_YEAST", "protein_name": "ATP synthase subunit gamma, mitochondrial", "refseq_ac": "NP_009595", "refseq_name": "F1F0 ATP synthase subunit gamma", "gene_name": "ATP3", "gene_names_uniprotkb": "ATP3; ATP3a; ATP3b; YBR0408", "gene_names_refseq": "ATP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077", "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": "SIKNIEKITKTMKIVASTRL", "down_seq": "KAEKAKISAKKMDEAEQLFY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243" }, { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser65" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "303", "end_pos": "303" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38077-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "P38077-1", "length": 311, "uniprot_id": "ATPG_YEAST", "protein_name": "ATP synthase subunit gamma, mitochondrial", "refseq_ac": "NP_009595", "refseq_name": "F1F0 ATP synthase subunit gamma", "gene_name": "ATP3", "gene_names_uniprotkb": "ATP3; ATP3a; ATP3b; YBR0408", "gene_names_refseq": "ATP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38077", "url": "https://www.uniprot.org/uniprotkb/P38077" } ], "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": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077", "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": "MLSRIV", "down_seq": "NNATRSVMCHQAQVGILYKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000243", "url": "https://www.yeastgenome.org/locus/S000000243" }, { "database": "iPTMnet", "id": "P38077", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38077" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser7" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "303", "end_pos": "303" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "176", "end_pos": "176" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.1001.1001", "start_pos": 1001, "end_pos": 1001, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NKNDSPAPNSHHSYRVSPHA", "down_seq": "TAITENKRHSTGHELSTRSN", "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": "Ser1001", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38080-1.985.985", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38080-1.997.997", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.1002.1002", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.1011.1011", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.1012.1012", "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": "P38080-1.1048.1048", "start_pos": 1048, "end_pos": 1048, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "A proteomics approach to understanding protein ubiquitination.", "journal": "Nat. Biotechnol.", "date": "2003", "authors": "Peng Junmin, Schwartz Daniel, Elias Joshua E, Thoreen Carson C, Cheng Dongmei, Marsischky Gerald, Roelofs Jeroen, Finley Daniel, Gygi Steven P", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "12872131", "url": "https://glygen.org/publication/PubMed/12872131" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "12872131", "url": "https://glygen.org/publication/PubMed/12872131", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RTGSKQRHDLERYRHSKDKD", "down_seq": "NSSITISTSTPSEMRKSFAR", "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": "Ser1048", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "12872131", "url": "https://glygen.org/publication/PubMed/12872131" }, { "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": "Ser1048" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38080-1.1050.1050", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.1051.1051", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.1055.1055", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.1057.1057", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.1060.1060", "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": 13 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.1050.1050", "start_pos": 1050, "end_pos": 1050, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GSKQRHDLERYRHSKDKDSN", "down_seq": "SITISTSTPSEMRKSFARAR", "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": "Ser1050", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1050" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38080-1.1048.1048", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.1051.1051", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.1055.1055", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.1057.1057", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.1060.1060", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.1051.1051", "start_pos": 1051, "end_pos": 1051, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "A proteomics approach to understanding protein ubiquitination.", "journal": "Nat. Biotechnol.", "date": "2003", "authors": "Peng Junmin, Schwartz Daniel, Elias Joshua E, Thoreen Carson C, Cheng Dongmei, Marsischky Gerald, Roelofs Jeroen, Finley Daniel, Gygi Steven P", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "12872131", "url": "https://glygen.org/publication/PubMed/12872131" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "12872131", "url": "https://glygen.org/publication/PubMed/12872131", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKQRHDLERYRHSKDKDSNS", "down_seq": "ITISTSTPSEMRKSFARARQ", "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": "Ser1051", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "12872131", "url": "https://glygen.org/publication/PubMed/12872131" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1051" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38080-1.1048.1048", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.1050.1050", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.1055.1055", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38080-1.1057.1057", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.1060.1060", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.1055.1055", "start_pos": 1055, "end_pos": 1055, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "HDLERYRHSKDKDSNSSITI", "down_seq": "TSTPSEMRKSFARARQSLDL", "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": "Ser1055", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1055" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38080-1.1048.1048", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.1050.1050", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38080-1.1051.1051", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.1057.1057", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.1060.1060", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.1072.1072", "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": "P38080-1.1057.1057", "start_pos": 1057, "end_pos": 1057, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LERYRHSKDKDSNSSITIST", "down_seq": "TPSEMRKSFARARQSLDLER", "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": "Ser1057", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38080-1.1048.1048", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.1050.1050", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38080-1.1051.1051", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38080-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.1055.1055", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.1060.1060", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38080-1.1072.1072", "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": "P38080-1.1060.1060", "start_pos": 1060, "end_pos": 1060, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YRHSKDKDSNSSITISTSTP", "down_seq": "EMRKSFARARQSLDLERVRR", "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": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38080-1.1048.1048", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.1050.1050", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38080-1.1051.1051", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.1055.1055", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.1057.1057", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.1072.1072", "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": "P38080-1.1085.1085", "start_pos": 1085, "end_pos": 1085, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SFARARQSLDLERVRREAMA", "down_seq": "SASSSGGSNGKRRSFFSVFR", "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": "Ser1085", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38080-1.1072.1072", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.1086.1086", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.1089.1089", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.1090.1090", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38080-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.1099.1099", "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": "P38080-1.1086.1086", "start_pos": 1086, "end_pos": 1086, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FARARQSLDLERVRREAMAS", "down_seq": "ASSSGGSNGKRRSFFSVFRS", "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": "Ser1086", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.1072.1072", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.1085.1085", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.1089.1089", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.1090.1090", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.1099.1099", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38080-1.1106.1106", "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": "P38080-1.1088.1088", "start_pos": 1088, "end_pos": 1088, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RARQSLDLERVRREAMASSA", "down_seq": "SSGGSNGKRRSFFSVFRSEK", "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": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38080-1.1072.1072", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.1085.1085", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.1086.1086", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.1089.1089", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.1090.1090", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.1099.1099", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38080-1.1106.1106", "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": "P38080-1.1089.1089", "start_pos": 1089, "end_pos": 1089, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "ARQSLDLERVRREAMASSAS", "down_seq": "SGGSNGKRRSFFSVFRSEK", "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": "Ser1089", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1089" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38080-1.1072.1072", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38080-1.1085.1085", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.1086.1086", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.1090.1090", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.1099.1099", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.1106.1106", "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": "P38080-1.1090.1090", "start_pos": 1090, "end_pos": 1090, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RQSLDLERVRREAMASSASS", "down_seq": "GGSNGKRRSFFSVFRSEK", "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": "Ser1090", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38080-1.1072.1072", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.1085.1085", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38080-1.1086.1086", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.1089.1089", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.1099.1099", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38080-1.1106.1106", "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": "P38080-1.1093.1093", "start_pos": 1093, "end_pos": 1093, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LDLERVRREAMASSASSSGG", "down_seq": "NGKRRSFFSVFRSEK", "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": "Ser1093", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38080-1.1085.1085", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.1086.1086", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38080-1.1089.1089", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.1090.1090", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38080-1.1099.1099", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.1106.1106", "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": "P38080-1.997.997", "start_pos": 997, "end_pos": 997, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "QEHRNKNDSPAPNSHHSYRV", "down_seq": "PHASTAITENKRHSTGHELS", "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": "Ser997", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38080", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38080" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser997" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38080-1.985.985", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.1001.1001", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.1002.1002", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.1011.1011", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38080-1.1012.1012", "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": "P38080-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" }, { "database": "O-GlcNAc Atlas", "id": "P38080", "url": "https://oglcnac.org/atlas/detail/P38080" } ], "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": "P38080", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080", "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": "P38080", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38080" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38080-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.12.12", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.1002.1002", "start_pos": 1002, "end_pos": 1002, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "KNDSPAPNSHHSYRVSPHAS", "down_seq": "AITENKRHSTGHELSTRSNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr1002" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38080-1.985.985", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.997.997", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.1001.1001", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.1011.1011", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.1012.1012", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.1011.1011", "start_pos": 1011, "end_pos": 1011, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "HHSYRVSPHASTAITENKRH", "down_seq": "TGHELSTRSNGKHETHRTGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser1011" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.997.997", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.1001.1001", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38080-1.1002.1002", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.1012.1012", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.1012.1012", "start_pos": 1012, "end_pos": 1012, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "HSYRVSPHASTAITENKRHS", "down_seq": "GHELSTRSNGKHETHRTGSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1012" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38080-1.997.997", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38080-1.1001.1001", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.1002.1002", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.1011.1011", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.1053.1053", "start_pos": 1053, "end_pos": 1053, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "QRHDLERYRHSKDKDSNSSI", "down_seq": "ISTSTPSEMRKSFARARQSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1053" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38080-1.1048.1048", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.1050.1050", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.1051.1051", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.1055.1055", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.1057.1057", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.1060.1060", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38080-1.1072.1072", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.1072.1072", "start_pos": 1072, "end_pos": 1072, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "TOR Complex 2-Regulated Protein Kinase Fpk1 Stimulates Endocytosis via Inhibition of Ark1/Prk1-Related Protein Kinase Akl1 in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "2017-04-01", "authors": "Roelants Fran\u00e7oise M, Leskoske Kristin L, Pedersen Ross T A, Muir Alexander, Liu Jeffrey M-H, Finnigan Gregory C, Thorner Jeremy", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "28069741", "url": "https://glygen.org/publication/PubMed/28069741" } ] }, { "title": "Target of rapamycin complex 2-dependent phosphorylation of the coat protein Pan1 by Akl1 controls endocytosis dynamics in Saccharomyces cerevisiae.", "journal": "The Journal of biological chemistry", "date": "2018-08-03", "authors": "Bourgoint Cl\u00e9lia, Rispal Delphine, Berti Marina, Filipuzzi Ireos, Helliwell Stephen B, Prouteau Mano\u00ebl, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "29895620", "url": "https://glygen.org/publication/PubMed/29895620" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & 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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "28069741", "url": "https://glygen.org/publication/PubMed/28069741", "database": "PubMed", "categories": [ "Other" ] }, { "id": "29895620", "url": "https://glygen.org/publication/PubMed/29895620", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "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": "ITISTSTPSEMRKSFARARQ", "down_seq": "LDLERVRREAMASSASSSGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "28069741", "url": "https://glygen.org/publication/PubMed/28069741" }, { "database": "PubMed", "id": "29895620", "url": "https://glygen.org/publication/PubMed/29895620" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "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": "Ser1072" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38080-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38080-1.1055.1055", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38080-1.1057.1057", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38080-1.1060.1060", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.1085.1085", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.1086.1086", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38080-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.1089.1089", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38080-1.1090.1090", "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": 15 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.1099.1099", "start_pos": 1099, "end_pos": 1099, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "RREAMASSASSSGGSNGKRR", "down_seq": "FFSVFRSEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser1099" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.1085.1085", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38080-1.1086.1086", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38080-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.1089.1089", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38080-1.1090.1090", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38080-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.1106.1106", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.10.10", "start_pos": 10, "end_pos": 10, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "MSITNGTSR", "down_seq": "VSAMGHPAVERYTPGHIVCV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser10" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38080-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38080-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38080-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.12.12", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.1106.1106", "start_pos": 1106, "end_pos": 1106, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "SASSSGGSNGKRRSFFSVFR", "down_seq": "EK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1106" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38080-1.1086.1086", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38080-1.1088.1088", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38080-1.1089.1089", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38080-1.1090.1090", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38080-1.1093.1093", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.1099.1099", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.12.12", "start_pos": 12, "end_pos": 12, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "MSITNGTSRSV", "down_seq": "AMGHPAVERYTPGHIVCVGT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser12" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38080-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38080-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.10.10", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "ITNGTSRSVSAMGHPAVERY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38080-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38080-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.12.12", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.370.370", "start_pos": 370, "end_pos": 370, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "NVQLQMYQLQQKKIMQNNKL", "down_seq": "DSEENLLNDMFLSSFEISSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser370" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38080-1.372.372", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.372.372", "start_pos": 372, "end_pos": 372, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "QLQMYQLQQKKIMQNNKLSD", "down_seq": "EENLLNDMFLSSFEISSKLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser372" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38080-1.370.370", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.396.396", "start_pos": 396, "end_pos": 396, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "LLNDMFLSSFEISSKLPMNA", "down_seq": "DGHAAVSRIPSQNVGQELEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser396" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38080-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.407.407", "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": "P38080-1.403.403", "start_pos": 403, "end_pos": 403, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "SSFEISSKLPMNASDGHAAV", "down_seq": "RIPSQNVGQELEEEKESQSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser403" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38080-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.420.420", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38080-1.422.422", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.407.407", "start_pos": 407, "end_pos": 407, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "ISSKLPMNASDGHAAVSRIP", "down_seq": "QNVGQELEEEKESQSDQRKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser407" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38080-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38080-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.420.420", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38080-1.422.422", "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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.420.420", "start_pos": 420, "end_pos": 420, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "AAVSRIPSQNVGQELEEEKE", "down_seq": "QSDQRKSTLSEDKSSRTTSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser420" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38080-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38080-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.434.434", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38080-1.435.435", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.422.422", "start_pos": 422, "end_pos": 422, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "VSRIPSQNVGQELEEEKESQ", "down_seq": "DQRKSTLSEDKSSRTTSNAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser422" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38080-1.403.403", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38080-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.420.420", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38080-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.434.434", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.435.435", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.430.430", "start_pos": 430, "end_pos": 430, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "VGQELEEEKESQSDQRKSTL", "down_seq": "EDKSSRTTSNANSSGTANNP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "Ser430" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38080-1.420.420", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38080-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.434.434", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38080-1.446.446", "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": "P38080-1.434.434", "start_pos": 434, "end_pos": 434, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "LEEEKESQSDQRKSTLSEDK", "down_seq": "SRTTSNANSSGTANNPQEIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser434" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.420.420", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38080-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38080-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.446.446", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.435.435", "start_pos": 435, "end_pos": 435, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "EEEKESQSDQRKSTLSEDKS", "down_seq": "RTTSNANSSGTANNPQEINT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser435" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38080-1.420.420", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38080-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.434.434", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.446.446", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.446.446", "start_pos": 446, "end_pos": 446, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "KSTLSEDKSSRTTSNANSSG", "down_seq": "ANNPQEINTIQSPGIEDKSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr446" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38080-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38080-1.434.434", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38080-1.435.435", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.458.458", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38080-1.465.465", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.458.458", "start_pos": 458, "end_pos": 458, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "TSNANSSGTANNPQEINTIQ", "down_seq": "PGIEDKSIFENKTPGELYYP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser458" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38080-1.446.446", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.465.465", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.471.471", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.465.465", "start_pos": 465, "end_pos": 465, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "GTANNPQEINTIQSPGIEDK", "down_seq": "IFENKTPGELYYPSVSELDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser465" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38080-1.446.446", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.458.458", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38080-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38080-1.485.485", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.471.471", "start_pos": 471, "end_pos": 471, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "QEINTIQSPGIEDKSIFENK", "down_seq": "PGELYYPSVSELDTYLDKEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr471" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38080-1.458.458", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38080-1.465.465", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38080-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38080-1.486.486", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.479.479", "start_pos": 479, "end_pos": 479, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "PGIEDKSIFENKTPGELYYP", "down_seq": "VSELDTYLDKELVKQSSDPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser479" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.465.465", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38080-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38080-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.486.486", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38080-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.496.496", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.485.485", "start_pos": 485, "end_pos": 485, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "SIFENKTPGELYYPSVSELD", "down_seq": "YLDKELVKQSSDPTISEQSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr485" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38080-1.465.465", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38080-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38080-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.486.486", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38080-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.486.486", "start_pos": 486, "end_pos": 486, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "IFENKTPGELYYPSVSELDT", "down_seq": "LDKELVKQSSDPTISEQSPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr486" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38080-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38080-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.495.495", "start_pos": 495, "end_pos": 495, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "LYYPSVSELDTYLDKELVKQ", "down_seq": "SDPTISEQSPRLNTQSLPQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser495" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38080-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38080-1.486.486", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38080-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.509.509", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38080-1.511.511", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.496.496", "start_pos": 496, "end_pos": 496, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YYPSVSELDTYLDKELVKQS", "down_seq": "DPTISEQSPRLNTQSLPQRQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser496" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38080-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38080-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.486.486", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.509.509", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38080-1.511.511", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "MSI", "down_seq": "NGTSRSVSAMGHPAVERYTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr4" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38080-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38080-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38080-1.12.12", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.501.501", "start_pos": 501, "end_pos": 501, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SELDTYLDKELVKQSSDPTI", "down_seq": "EQSPRLNTQSLPQRQKSTSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser501" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38080-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38080-1.486.486", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38080-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38080-1.509.509", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.504.504", "start_pos": 504, "end_pos": 504, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "DTYLDKELVKQSSDPTISEQ", "down_seq": "PRLNTQSLPQRQKSTSSYSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "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": "Ser504" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "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": "Ser504" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "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": "Ser504" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38080-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38080-1.486.486", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38080-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38080-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.509.509", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38080-1.524.524", "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": 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": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.509.509", "start_pos": 509, "end_pos": 509, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "KELVKQSSDPTISEQSPRLN", "down_seq": "QSLPQRQKSTSSYSSGGRSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr509" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38080-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38080-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38080-1.524.524", "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": "P38080-1.511.511", "start_pos": 511, "end_pos": 511, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "LVKQSSDPTISEQSPRLNTQ", "down_seq": "LPQRQKSTSSYSSGGRSMKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "Ser511" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38080-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38080-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.509.509", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38080-1.531.531", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.518.518", "start_pos": 518, "end_pos": 518, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "PTISEQSPRLNTQSLPQRQK", "down_seq": "TSSYSSGGRSMKSTSYGAAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser518" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38080-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38080-1.509.509", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38080-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38080-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38080-1.538.538", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.520.520", "start_pos": 520, "end_pos": 520, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "ISEQSPRLNTQSLPQRQKST", "down_seq": "SYSSGGRSMKSTSYGAATIG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "Ser520" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38080-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38080-1.509.509", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38080-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38080-1.538.538", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.521.521", "start_pos": 521, "end_pos": 521, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "SEQSPRLNTQSLPQRQKSTS", "down_seq": "YSSGGRSMKSTSYGAATIGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser521" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38080-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38080-1.509.509", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.538.538", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38080-1.541.541", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.523.523", "start_pos": 523, "end_pos": 523, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "QSPRLNTQSLPQRQKSTSSY", "down_seq": "SGGRSMKSTSYGAATIGSDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser523" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38080-1.509.509", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38080-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38080-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38080-1.538.538", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38080-1.541.541", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.524.524", "start_pos": 524, "end_pos": 524, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "SPRLNTQSLPQRQKSTSSYS", "down_seq": "GGRSMKSTSYGAATIGSDEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser524" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38080-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38080-1.509.509", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38080-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38080-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.538.538", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.541.541", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.531.531", "start_pos": 531, "end_pos": 531, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SLPQRQKSTSSYSSGGRSMK", "down_seq": "TSYGAATIGSDEALANEKTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser531" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38080-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.538.538", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.541.541", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.532.532", "start_pos": 532, "end_pos": 532, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LPQRQKSTSSYSSGGRSMKS", "down_seq": "SYGAATIGSDEALANEKTAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr532" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38080-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38080-1.538.538", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38080-1.541.541", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.533.533", "start_pos": 533, "end_pos": 533, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PQRQKSTSSYSSGGRSMKST", "down_seq": "YGAATIGSDEALANEKTAGI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser533" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38080-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.538.538", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38080-1.541.541", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.538.538", "start_pos": 538, "end_pos": 538, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "STSSYSSGGRSMKSTSYGAA", "down_seq": "IGSDEALANEKTAGINKMKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr538" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38080-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38080-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38080-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38080-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.541.541", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.541.541", "start_pos": 541, "end_pos": 541, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "SYSSGGRSMKSTSYGAATIG", "down_seq": "DEALANEKTAGINKMKQHKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser541" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38080-1.521.521", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38080-1.523.523", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38080-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38080-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38080-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.538.538", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38080-1.561.561", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.561.561", "start_pos": 561, "end_pos": 561, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "SDEALANEKTAGINKMKQHK", "down_seq": "NNPFPKMNVAYHSTNELSND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser561" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38080-1.541.541", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.574.574", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.575.575", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.572.572", "start_pos": 572, "end_pos": 572, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "GINKMKQHKSNNPFPKMNVA", "down_seq": "HSTNELSNDASNFFLEEQQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr572" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38080-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.574.574", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.575.575", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.574.574", "start_pos": 574, "end_pos": 574, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NKMKQHKSNNPFPKMNVAYH", "down_seq": "TNELSNDASNFFLEEQQQGQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" } ], "site_lbl": "Ser574" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38080-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.575.575", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.575.575", "start_pos": 575, "end_pos": 575, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KMKQHKSNNPFPKMNVAYHS", "down_seq": "NELSNDASNFFLEEQQQGQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" } ], "site_lbl": "Thr575" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.574.574", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.603.603", "start_pos": 603, "end_pos": 603, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "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" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SNFFLEEQQQGQRYQQAQNQ", "down_seq": "GTQGNTFPDESQYQSRVEQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Thr603" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38080-1.605.605", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.605.605", "start_pos": 605, "end_pos": 605, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "FFLEEQQQGQRYQQAQNQTG", "down_seq": "QGNTFPDESQYQSRVEQQQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr605" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38080-1.603.603", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.637.637", "start_pos": 637, "end_pos": 637, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "QSRVEQQQQQQDQPKGPANY", "down_seq": "QRNFYTGRDRSNKPMQLGGT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser637" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "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": "P38080-1.763.763", "start_pos": 763, "end_pos": 763, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "QMQIQNANNNGTYVSDRTNH", "down_seq": "TEDMRNAQGGEPPILAGNSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr763" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "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": "P38080-1.801.801", "start_pos": 801, "end_pos": 801, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "NSANEPMHSSSKNEALLIEL", "down_seq": "PLKEDAGKQSFQDTNEPQTG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser801" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser801" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "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": "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": "Ser801" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P38080-1.815.815", "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": 3 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.815.815", "start_pos": 815, "end_pos": 815, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ALLIELSPLKEDAGKQSFQD", "down_seq": "NEPQTGGIEDAGGSGTIKGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" } ], "site_lbl": "Thr815" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.801.801", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.829.829", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.829.829", "start_pos": 829, "end_pos": 829, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "KQSFQDTNEPQTGGIEDAGG", "down_seq": "GTIKGSNNNRNGVLNLSLNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser829" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.815.815", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.846.846", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.846.846", "start_pos": 846, "end_pos": 846, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "AGGSGTIKGSNNNRNGVLNL", "down_seq": "LNEMDLSRDDTGAAVSSFSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser846" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38080-1.829.829", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.853.853", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.863.863", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38080-1.865.865", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38080-1.853.853", "start_pos": 853, "end_pos": 853, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "KGSNNNRNGVLNLSLNEMDL", "down_seq": "RDDTGAAVSSFSSSSSSASI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser853" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38080-1.846.846", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.863.863", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.865.865", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.867.867", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.863.863", "start_pos": 863, "end_pos": 863, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "LNLSLNEMDLSRDDTGAAVS", "down_seq": "FSSSSSSASIQQAKLSGRKG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser863" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38080-1.846.846", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38080-1.853.853", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.865.865", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38080-1.867.867", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38080-1.879.879", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.865.865", "start_pos": 865, "end_pos": 865, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "LSLNEMDLSRDDTGAAVSSF", "down_seq": "SSSSSASIQQAKLSGRKGSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser865" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38080-1.846.846", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38080-1.853.853", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.863.863", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.867.867", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.879.879", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38080-1.884.884", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.867.867", "start_pos": 867, "end_pos": 867, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LNEMDLSRDDTGAAVSSFSS", "down_seq": "SSSASIQQAKLSGRKGSSKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" } ], "site_lbl": "Ser867" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.853.853", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38080-1.863.863", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.865.865", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.879.879", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.884.884", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.879.879", "start_pos": 879, "end_pos": 879, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "AAVSSFSSSSSSASIQQAKL", "down_seq": "GRKGSSKRNNYSTDELGDSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Ser879" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38080-1.863.863", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38080-1.865.865", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38080-1.867.867", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38080-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.891.891", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.884.884", "start_pos": 884, "end_pos": 884, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "FSSSSSSASIQQAKLSGRKG", "down_seq": "SKRNNYSTDELGDSMVSSES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Ser884" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38080-1.865.865", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38080-1.867.867", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38080-1.879.879", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.891.891", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38080-1.904.904", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.891.891", "start_pos": 891, "end_pos": 891, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "ASIQQAKLSGRKGSSKRNNY", "down_seq": "TDELGDSMVSSESIDIDLDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser891" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38080-1.879.879", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.904.904", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.904.904", "start_pos": 904, "end_pos": 904, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "SSKRNNYSTDELGDSMVSSE", "down_seq": "IDIDLDDARRGKTAERRPLH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser904" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38080-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38080-1.891.891", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.950.950", "start_pos": 950, "end_pos": 950, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "KDQARSSDASKSNQFKSKDF", "down_seq": "SVSTRQPRQSLDLNFQEVNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser950" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38080-1.953.953", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38080-1.960.960", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.953.953", "start_pos": 953, "end_pos": 953, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ARSSDASKSNQFKSKDFSSV", "down_seq": "TRQPRQSLDLNFQEVNLSSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" } ], "site_lbl": "Ser953" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38080-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38080-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38080-1.971.971", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38080-1.972.972", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.960.960", "start_pos": 960, "end_pos": 960, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "TOR Complex 2-Regulated Protein Kinase Fpk1 Stimulates Endocytosis via Inhibition of Ark1/Prk1-Related Protein Kinase Akl1 in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "2017-04-01", "authors": "Roelants Fran\u00e7oise M, Leskoske Kristin L, Pedersen Ross T A, Muir Alexander, Liu Jeffrey M-H, Finnigan Gregory C, Thorner Jeremy", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "28069741", "url": "https://glygen.org/publication/PubMed/28069741" } ] }, { "title": "Target of rapamycin complex 2-dependent phosphorylation of the coat protein Pan1 by Akl1 controls endocytosis dynamics in Saccharomyces cerevisiae.", "journal": "The Journal of biological chemistry", "date": "2018-08-03", "authors": "Bourgoint Cl\u00e9lia, Rispal Delphine, Berti Marina, Filipuzzi Ireos, Helliwell Stephen B, Prouteau Mano\u00ebl, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "29895620", "url": "https://glygen.org/publication/PubMed/29895620" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "28069741", "url": "https://glygen.org/publication/PubMed/28069741", "database": "PubMed", "categories": [ "Other" ] }, { "id": "29895620", "url": "https://glygen.org/publication/PubMed/29895620", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "KSNQFKSKDFSSVSTRQPRQ", "down_seq": "LDLNFQEVNLSSPTLTQEHR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "28069741", "url": "https://glygen.org/publication/PubMed/28069741" }, { "database": "PubMed", "id": "29895620", "url": "https://glygen.org/publication/PubMed/29895620" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser960" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38080-1.950.950", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38080-1.953.953", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.971.971", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.974.974", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.971.971", "start_pos": 971, "end_pos": 971, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SVSTRQPRQSLDLNFQEVNL", "down_seq": "SPTLTQEHRNKNDSPAPNSH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser971" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38080-1.953.953", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38080-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38080-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38080-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38080-1.985.985", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38080-1.972.972", "start_pos": 972, "end_pos": 972, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "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": "VSTRQPRQSLDLNFQEVNLS", "down_seq": "PTLTQEHRNKNDSPAPNSHH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser972" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38080-1.953.953", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38080-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38080-1.971.971", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38080-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38080-1.985.985", "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": "P38080-1.974.974", "start_pos": 974, "end_pos": 974, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "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": "TRQPRQSLDLNFQEVNLSSP", "down_seq": "LTQEHRNKNDSPAPNSHHSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr974" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38080-1.971.971", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38080-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38080-1.985.985", "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": "P38080-1.985.985", "start_pos": 985, "end_pos": 985, "uniprot_canonical_ac": "P38080-1", "length": 1108, "uniprot_id": "AKL1_YEAST", "protein_name": "Serine/threonine-protein kinase AKL1", "refseq_ac": "NP_009615", "refseq_name": "serine/threonine protein kinase AKL1", "gene_name": "AKL1", "gene_names_uniprotkb": "AKL1; YBR0519", "gene_names_refseq": "AKL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38080", "url": "https://www.uniprot.org/uniprotkb/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "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": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FQEVNLSSPTLTQEHRNKND", "down_seq": "PAPNSHHSYRVSPHASTAIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38080", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38080" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000263", "url": "https://www.yeastgenome.org/locus/S000000263" }, { "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": "Ser985" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1086", "end_pos": "1086" }, { "start_pos": "1088", "end_pos": "1088" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "997", "end_pos": "997" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1011", "end_pos": "1011" }, { "start_pos": "1012", "end_pos": "1012" }, { "start_pos": "1048", "end_pos": "1048" }, { "start_pos": "1050", "end_pos": "1050" }, { "start_pos": "1051", "end_pos": "1051" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1072", "end_pos": "1072" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1099", "end_pos": "1099" }, { "start_pos": "10", "end_pos": "10" }, { "start_pos": "1106", "end_pos": "1106" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "403", "end_pos": "403" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "521", "end_pos": "521" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "541", "end_pos": "541" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "637", "end_pos": "637" }, { "start_pos": "763", "end_pos": "763" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "829", "end_pos": "829" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "853", "end_pos": "853" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "865", "end_pos": "865" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "891", "end_pos": "891" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "950", "end_pos": "950" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "985", "end_pos": "985" }, { "start_pos": "997", "end_pos": "997" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38080-1.971.971", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38080-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38080-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38080-1.997.997", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38080-1.1001.1001", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38080-1.1002.1002", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38084-1.10.10", "start_pos": 10, "end_pos": 10, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "MLSSEDFGS", "down_seq": "GKKETSPDSISIRSFSAGNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser10" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38084-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38084-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38084-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38084-1.26.26", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LKKSMKSRHVVMMSLGTGIG", "down_seq": "GLLVANAKGLHYGGPAALII", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Thr111" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "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": "MLSSEDFGSSGKKE", "down_seq": "SPDSISIRSFSAGNNFQSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "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": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "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": "Thr15" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38084-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38084-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38084-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38084-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38084-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38084-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38084-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38084-1.35.35", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.16.16", "start_pos": 16, "end_pos": 16, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "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": "MLSSEDFGSSGKKET", "down_seq": "PDSISIRSFSAGNNFQSSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "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": "Ser16" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38084-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38084-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38084-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38084-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38084-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38084-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38084-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38084-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38084-1.36.36", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "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": "MLSSEDFGSSGKKETSPD", "down_seq": "ISIRSFSAGNNFQSSSSEKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "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": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "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": "Ser19" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38084-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38084-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38084-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38084-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38084-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38084-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38084-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38084-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38084-1.36.36", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.21.21", "start_pos": 21, "end_pos": 21, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "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": "MLSSEDFGSSGKKETSPDSI", "down_seq": "IRSFSAGNNFQSSSSEKTYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "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": "Ser21" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38084-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38084-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38084-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38084-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38084-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38084-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38084-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38084-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38084-1.36.36", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.24.24", "start_pos": 24, "end_pos": 24, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084", "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "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": "SEDFGSSGKKETSPDSISIR", "down_seq": "FSAGNNFQSSSSEKTYSKQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "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": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "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": "Ser24" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38084-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38084-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38084-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38084-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38084-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38084-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38084-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38084-1.36.36", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "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": "DFGSSGKKETSPDSISIRSF", "down_seq": "AGNNFQSSSSEKTYSKQKSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "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": "Ser26" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38084-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38084-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38084-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38084-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38084-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38084-1.36.36", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "KETSPDSISIRSFSAGNNFQ", "down_seq": "SSSEKTYSKQKSGSDKLIHR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser33" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38084-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38084-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38084-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38084-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38084-1.47.47", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.34.34", "start_pos": 34, "end_pos": 34, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "ETSPDSISIRSFSAGNNFQS", "down_seq": "SSEKTYSKQKSGSDKLIHRF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser34" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38084-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38084-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38084-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38084-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38084-1.47.47", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "TSPDSISIRSFSAGNNFQSS", "down_seq": "SEKTYSKQKSGSDKLIHRFA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser35" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38084-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38084-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38084-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38084-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38084-1.47.47", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.36.36", "start_pos": 36, "end_pos": 36, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "SPDSISIRSFSAGNNFQSSS", "down_seq": "EKTYSKQKSGSDKLIHRFAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38084-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38084-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38084-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38084-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38084-1.47.47", "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": "P38084-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "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" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ML", "down_seq": "SEDFGSSGKKETSPDSISIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "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" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38084-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38084-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38084-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38084-1.21.21", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "AGNNFQSSSSEKTYSKQKSG", "down_seq": "DKLIHRFADSFKRAEGSTTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser47" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38084-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38084-1.34.34", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38084-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38084-1.36.36", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "MLS", "down_seq": "EDFGSSGKKETSPDSISIRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "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": "Ser4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38084-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38084-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38084-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38084-1.24.24", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.599.599", "start_pos": 599, "end_pos": 599, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "YDPELMRQEDEENKEKLRNM", "down_seq": "LMRKAYHFWC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser599" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ADSFKRAEGSTTRTKQINEN", "down_seq": "SDLEDGVESITSDSKLKKSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "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": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "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": "Thr75" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38084-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38084-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38084-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38084-1.87.87", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DSFKRAEGSTTRTKQINENT", "down_seq": "DLEDGVESITSDSKLKKSMK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "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": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "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": "Ser76" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38084-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38084-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38084-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38084-1.87.87", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.84.84", "start_pos": 84, "end_pos": 84, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "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": "STTRTKQINENTSDLEDGVE", "down_seq": "ITSDSKLKKSMKSRHVVMMS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "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": "Ser84" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38084-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38084-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38084-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38084-1.87.87", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "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": "TRTKQINENTSDLEDGVESI", "down_seq": "SDSKLKKSMKSRHVVMMSLG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr86" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38084-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38084-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38084-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38084-1.87.87", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.87.87", "start_pos": 87, "end_pos": 87, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "RTKQINENTSDLEDGVESIT", "down_seq": "DSKLKKSMKSRHVVMMSLGT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "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": "Ser87" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38084-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38084-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38084-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38084-1.86.86", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38084-1.9.9", "start_pos": 9, "end_pos": 9, "uniprot_canonical_ac": "P38084-1", "length": 609, "uniprot_id": "BAP2_YEAST", "protein_name": "Leu/Val/Ile amino-acid permease", "refseq_ac": "NP_009624", "refseq_name": "branched-chain amino acid permease BAP2", "gene_name": "BAP2", "gene_names_uniprotkb": "BAP2; YBR0629", "gene_names_refseq": "BAP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38084", "url": "https://www.uniprot.org/uniprotkb/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "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": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084", "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": "MLSSEDFG", "down_seq": "SGKKETSPDSISIRSFSAGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000272", "url": "https://www.yeastgenome.org/locus/S000000272" }, { "database": "iPTMnet", "id": "P38084", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38084" }, { "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": "Ser9" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38084-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38084-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38084-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38084-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38084-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38084-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38084-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38084-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38084-1.26.26", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.13.13", "start_pos": 13, "end_pos": 13, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "MDDSVSFIAKEA", "down_seq": "PAQYSHSLHERTHSEKQKRD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "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": "Ser13" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38085-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38085-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38085-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38085-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38085-1.20.20", "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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "Y", "start_aa": "Y", "up_seq": "MDDSVSFIAKEASPAQ", "down_seq": "SHSLHERTHSEKQKRDFTIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr17" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38085-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38085-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38085-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38085-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38085-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38085-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38085-1.37.37", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38085-1.18.18", "start_pos": 18, "end_pos": 18, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "MDDSVSFIAKEASPAQY", "down_seq": "HSLHERTHSEKQKRDFTITE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "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": "Ser18" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38085-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38085-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38085-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38085-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38085-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38085-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38085-1.37.37", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38085-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "", "down_seq": "LHERTHSEKQKRDFTITEKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "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": "Ser20" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38085-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38085-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38085-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38085-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38085-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38085-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38085-1.37.37", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38085-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "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": "AQYSHSLHERTHSEKQKRDF", "down_seq": "ITEKQDEVSGQTAEPRRTDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr35" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38085-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38085-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38085-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38085-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38085-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38085-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38085-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "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": "YSHSLHERTHSEKQKRDFTI", "down_seq": "EKQDEVSGQTAEPRRTDSKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr37" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38085-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38085-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38085-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38085-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38085-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38085-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38085-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38085-1.57.57", "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": "P38085-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "RTHSEKQKRDFTITEKQDEV", "down_seq": "GQTAEPRRTDSKSILQRKCK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "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": "Ser44" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38085-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38085-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38085-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38085-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38085-1.57.57", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "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": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "SEKQKRDFTITEKQDEVSGQ", "down_seq": "AEPRRTDSKSILQRKCKEFF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "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": "Thr47" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38085-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38085-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38085-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38085-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38085-1.57.57", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "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": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "MDD", "down_seq": "VSFIAKEASPAQYSHSLHER", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "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": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "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": "Ser4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38085-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38085-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38085-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38085-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38085-1.20.20", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "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": "TITEKQDEVSGQTAEPRRTD", "down_seq": "KSILQRKCKEFFDSFKRQLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser55" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38085-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38085-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38085-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38085-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38085-1.57.57", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.577.577", "start_pos": 577, "end_pos": 577, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "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": "FWIPAEKIDLDSHRNIFVSP", "down_seq": "LTEIDKVDDNDDLKEYENSE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "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": "Ser577" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38085-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38085-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38085-1.596.596", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38085-1.579.579", "start_pos": 579, "end_pos": 579, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "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": "T", "start_aa": "T", "up_seq": "IPAEKIDLDSHRNIFVSPSL", "down_seq": "EIDKVDDNDDLKEYENSESS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "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": "Thr579" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38085-1.577.577", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38085-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38085-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38085-1.598.598", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38085-1.599.599", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38085-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "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": "TEKQDEVSGQTAEPRRTDSK", "down_seq": "ILQRKCKEFFDSFKRQLPPD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser57" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38085-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38085-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38085-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38085-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.593.593", "start_pos": 593, "end_pos": 593, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "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": "FVSPSLTEIDKVDDNDDLKE", "down_seq": "ENSESSENPNSSRSRKFFKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr593" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38085-1.577.577", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38085-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38085-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38085-1.598.598", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38085-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38085-1.605.605", "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": "P38085-1.596.596", "start_pos": 596, "end_pos": 596, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "PSLTEIDKVDDNDDLKEYEN", "down_seq": "ESSENPNSSRSRKFFKRMTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser596" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38085-1.577.577", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38085-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38085-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38085-1.598.598", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38085-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38085-1.605.605", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.598.598", "start_pos": 598, "end_pos": 598, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "LTEIDKVDDNDDLKEYENSE", "down_seq": "SENPNSSRSRKFFKRMTNFW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser598" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38085-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38085-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38085-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38085-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38085-1.605.605", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.599.599", "start_pos": 599, "end_pos": 599, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "TEIDKVDDNDDLKEYENSES", "down_seq": "ENPNSSRSRKFFKRMTNFWC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser599" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38085-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38085-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38085-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38085-1.598.598", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38085-1.605.605", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.605.605", "start_pos": 605, "end_pos": 605, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDNDDLKEYENSESSENPNS", "down_seq": "RSRKFFKRMTNFWC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" } ], "site_lbl": "Ser605" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38085-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38085-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38085-1.598.598", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38085-1.599.599", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "database": "iPTMnet", "categories": [ "Other" ] }, { "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": "MDDSV", "down_seq": "FIAKEASPAQYSHSLHERTH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "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": "Ser6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38085-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38085-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38085-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38085-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38085-1.20.20", "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": "P38085-1.80.80", "start_pos": 80, "end_pos": 80, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "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": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "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": "QRKCKEFFDSFKRQLPPDRN", "down_seq": "ELESQEKNNLTKSIKSRHLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "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": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38085-1.84.84", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38085-1.91.91", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.84.84", "start_pos": 84, "end_pos": 84, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085", "database": "UniProtKB", "categories": [ "Protein" ] }, { "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": "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KEFFDSFKRQLPPDRNSELE", "down_seq": "QEKNNLTKSIKSRHLVMISL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" }, { "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": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000273", "url": "https://www.yeastgenome.org/locus/S000000273" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "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": "Ser84" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38085-1.80.80", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38085-1.91.91", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 16 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38085-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "P38085-1", "length": 619, "uniprot_id": "TAT1_YEAST", "protein_name": "Valine/tyrosine/tryptophan amino-acid permease 1", "refseq_ac": "NP_009625", "refseq_name": "amino acid transporter TAT1", "gene_name": "TAT1", "gene_names_uniprotkb": "TAT1; TAP1; VAP1; YBR0710", "gene_names_refseq": "TAP1; TAT1; VAP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38085", "url": "https://www.uniprot.org/uniprotkb/P38085" } ], "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": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085", "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": "KRQLPPDRNSELESQEKNNL", "down_seq": "KSIKSRHLVMISLGTGIGTG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38085", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38085" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr91" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "84", "end_pos": "84" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38085-1.80.80", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38085-1.84.84", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38086-1.352.352", "start_pos": 352, "end_pos": 352, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Promotion of Rad51-dependent D-loop formation by yeast recombination factor Rdh54/Tid1.", "journal": "Genes & development", "date": "2000-09-01", "authors": "Petukhova G, Sung P, Klein H", "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "reference": [ { "type": "PubMed", "id": "10970884", "url": "https://glygen.org/publication/PubMed/10970884" } ] } ], "crossref": [ { "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10970884", "url": "https://glygen.org/publication/PubMed/10970884", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "VLENDSDISGCLLADDMGLG", "down_seq": "TLMSITLIWTLIRQTPFASK", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "R", "comment": "1%-2% of the ATPase activity.", "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" }, { "database": "PubMed", "id": "10970884", "url": "https://glygen.org/publication/PubMed/10970884" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "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": "P38086-1.124.124", "start_pos": 124, "end_pos": 124, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "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": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NTRYFTIMYRKPTTKKHKTW", "down_seq": "GDGYATLKASSDKLCFYNEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" } ], "site_lbl": "Ser124" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "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": "P38086-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "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": "VQLDYELKENAEIRSAKEAL", "down_seq": "QNMGNPSPPTTSTTETVPST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser192" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38086-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38086-1.206.206", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38086-1.199.199", "start_pos": 199, "end_pos": 199, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "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": "KENAEIRSAKEALSQNMGNP", "down_seq": "PPTTSTTETVPSTKNDGGKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "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": "Ser199" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38086-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38086-1.206.206", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38086-1.206.206", "start_pos": 206, "end_pos": 206, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "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": "SAKEALSQNMGNPSPPTTST", "down_seq": "ETVPSTKNDGGKYQMPLSQL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr206" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38086-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38086-1.199.199", "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": "P38086-1.420.420", "start_pos": 420, "end_pos": 420, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "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": "NWKREFGKWLNLSRIGVLTL", "down_seq": "SRNSPDMDKMAVRNFLKVQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser420" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "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": "P38086-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "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": "TQMQIPKYENKPFKPPRRVG", "down_seq": "NKYTQLKPTATAVTTAPISK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "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": "Ser53" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "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": "P38086-1.653.653", "start_pos": 653, "end_pos": 653, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "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": "NSPGLVGSDPYYKSHIKDTQ", "down_seq": "QDSYSRSLNSGKLKVLMTLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser653" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "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": "P38086-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "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": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "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": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Regulation of meiotic recombination via Mek1-mediated Rad54 phosphorylation.", "journal": "Molecular cell", "date": "2009-11-13", "authors": "Niu Hengyao, Wan Lihong, Busygina Valeria, Kwon YoungHo, Allen Jasmina A, Li Xue, Kunz Ryan C, Kubota Kazuishi, Wang Beatrice, Sung Patrick, Shokat Kevan M, Gygi Steven P, Hollingsworth Nancy M", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "19917248", "url": "https://glygen.org/publication/PubMed/19917248" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "19917248", "url": "https://glygen.org/publication/PubMed/19917248", "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": "AVTTAPISKAKVTVNLKRSI", "down_seq": "AGPTLNLAKKPNNLSSNENT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "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": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" }, { "database": "PubMed", "id": "19917248", "url": "https://glygen.org/publication/PubMed/19917248" }, { "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": "Ser85" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38086-1.89.89", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38086-1.880.880", "start_pos": 880, "end_pos": 880, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "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": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEIEYPETNQQQNTVELRKR", "down_seq": "TTTWTSALDLQKKMNEAATN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" } ], "site_lbl": "Ser880" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38086-1.885.885", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38086-1.886.886", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38086-1.885.885", "start_pos": 885, "end_pos": 885, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "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": "PETNQQQNTVELRKRSTTTW", "down_seq": "SALDLQKKMNEAATNDDAKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr885" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38086-1.880.880", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38086-1.886.886", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38086-1.886.886", "start_pos": 886, "end_pos": 886, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "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": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "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": "ETNQQQNTVELRKRSTTTWT", "down_seq": "ALDLQKKMNEAATNDDAKKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "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": "Ser886" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38086-1.880.880", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38086-1.885.885", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38086-1.89.89", "start_pos": 89, "end_pos": 89, "uniprot_canonical_ac": "P38086-1", "length": 958, "uniprot_id": "RDH54_YEAST", "protein_name": "DNA repair and recombination protein RDH54", "refseq_ac": "NP_009629", "refseq_name": "DNA-dependent ATPase RDH54", "gene_name": "RDH54", "gene_names_uniprotkb": "RDH54; TID1; YBR0715", "gene_names_refseq": "RDH54; TID1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38086", "url": "https://www.uniprot.org/uniprotkb/P38086" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of meiotic recombination via Mek1-mediated Rad54 phosphorylation.", "journal": "Molecular cell", "date": "2009-11-13", "authors": "Niu Hengyao, Wan Lihong, Busygina Valeria, Kwon YoungHo, Allen Jasmina A, Li Xue, Kunz Ryan C, Kubota Kazuishi, Wang Beatrice, Sung Patrick, Shokat Kevan M, Gygi Steven P, Hollingsworth Nancy M", "evidence": [ { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" } ], "reference": [ { "type": "PubMed", "id": "19917248", "url": "https://glygen.org/publication/PubMed/19917248" } ] } ], "crossref": [ { "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19917248", "url": "https://glygen.org/publication/PubMed/19917248", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "APISKAKVTVNLKRSISAGP", "down_seq": "LNLAKKPNNLSSNENTRYFT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000277", "url": "https://www.yeastgenome.org/locus/S000000277" }, { "database": "iPTMnet", "id": "P38086", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38086" }, { "database": "PubMed", "id": "19917248", "url": "https://glygen.org/publication/PubMed/19917248" } ], "site_lbl": "Thr89" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "653", "end_pos": "653" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "885", "end_pos": "885" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38086-1.85.85", "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": "P38088-1.202.202", "start_pos": 202, "end_pos": 202, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "KLDDDVVKEYEEILAKIDGY", "down_seq": "GPELGELMEKYDIGNPVTGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser202" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "GPELGELMEKYDIGNPVTGE", "down_seq": "LESPRAFNLMFETAIGPSGQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr223" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38088-1.226.226", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.226.226", "start_pos": 226, "end_pos": 226, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "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": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "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": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "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": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "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": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "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": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088", "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": "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": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "LGELMEKYDIGNPVTGETLE", "down_seq": "PRAFNLMFETAIGPSGQLKG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "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": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser226" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38088-1.223.223", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "NISRRFYSQIVKKSVKIKRM", "down_seq": "VEDIKKARAAVPFNREQLES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser25" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38088-1.7.7", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38088-1.45.45", "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": "P38088-1.269.269", "start_pos": 269, "end_pos": 269, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "RPETAQGQFLNFNKLLEFNN", "down_seq": "KTPFASASIGKSFRNEISPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser269" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38088-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38088-1.277.277", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38088-1.287.287", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.271.271", "start_pos": 271, "end_pos": 271, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "ETAQGQFLNFNKLLEFNNSK", "down_seq": "PFASASIGKSFRNEISPRAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr271" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38088-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38088-1.277.277", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38088-1.287.287", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.277.277", "start_pos": 277, "end_pos": 277, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "FLNFNKLLEFNNSKTPFASA", "down_seq": "IGKSFRNEISPRAGLLRVRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser277" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38088-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38088-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38088-1.287.287", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.287.287", "start_pos": 287, "end_pos": 287, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "NNSKTPFASASIGKSFRNEI", "down_seq": "PRAGLLRVREFLMAEIEHFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser287" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38088-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38088-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38088-1.277.277", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "FFNISRRFYSQIVKKSVKIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38088-1.7.7", "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": "P38088-1.351.351", "start_pos": 351, "end_pos": 351, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "DVQEAGSTEPIVKTVGEAVA", "down_seq": "RMVDNETLGYFIARIYQFLM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser351" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.378.378", "start_pos": 378, "end_pos": 378, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "TLGYFIARIYQFLMKIGVDE", "down_seq": "KLRFRQHMANEMAHYAADCW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser378" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.426.426", "start_pos": 426, "end_pos": 426, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "YGWIECVGCADRSAYDLTVH", "down_seq": "KKTKEKLVVRQKLDNPIEVT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser426" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "SVEDIKKARAAVPFNREQLE", "down_seq": "VLRGRFFYAPAFDLYGGVSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser45" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38088-1.25.25", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.476.476", "start_pos": 476, "end_pos": 476, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "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": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "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": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "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": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088", "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": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "LFGPKFRKDAPKVESHLLNM", "down_seq": "QDDLASKAELLKANGKFTIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "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": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser476" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38088-1.482.482", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.482.482", "start_pos": 482, "end_pos": 482, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "RKDAPKVESHLLNMSQDDLA", "down_seq": "KAELLKANGKFTIKVDGVDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser482" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38088-1.476.476", "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": "P38088-1.528.528", "start_pos": 528, "end_pos": 528, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "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": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "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": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "DKLVKIEQRTKVEHVREYVP", "down_seq": "VIEPSFGIGRIIYSVFEHSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser528" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.558.558", "start_pos": 558, "end_pos": 558, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "RIIYSVFEHSFWNRPEDNAR", "down_seq": "VLSFPPLVAPTKVLLVPLSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser558" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38088-1.561.561", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.561.561", "start_pos": 561, "end_pos": 561, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "YSVFEHSFWNRPEDNARSVL", "down_seq": "FPPLVAPTKVLLVPLSNHKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser561" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38088-1.558.558", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.608.608", "start_pos": 608, "end_pos": 608, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "EVAKILRKSQIPFKIDDSGV", "down_seq": "IGKRYARNDELGTPFGVTID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser608" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38088-1.613.613", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.613.613", "start_pos": 613, "end_pos": 613, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "LRKSQIPFKIDDSGVSIGKR", "down_seq": "ARNDELGTPFGVTIDFESAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr613" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38088-1.608.608", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.636.636", "start_pos": 636, "end_pos": 636, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "NDELGTPFGVTIDFESAKDH", "down_seq": "VTLRERDSTKQVRGSVENVI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser636" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P38088-1.651.651", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.651.651", "start_pos": 651, "end_pos": 651, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "SAKDHSVTLRERDSTKQVRG", "down_seq": "VENVIKAIRDITYNGASWEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser651" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38088-1.636.636", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.689.689", "start_pos": 689, "end_pos": 689, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "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": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "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": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "WEEGTKDLTPFIAQAEAEAE", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr689" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38088-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "P38088-1", "length": 690, "uniprot_id": "SYG_YEAST", "protein_name": "Glycine--tRNA ligase 1, mitochondrial", "refseq_ac": "NP_009679", "refseq_name": "glycine--tRNA ligase", "gene_name": "GRS1", "gene_names_uniprotkb": "GRS1; YBR0917", "gene_names_refseq": "GRS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38088", "url": "https://www.uniprot.org/uniprotkb/P38088" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088", "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": "MSFFNI", "down_seq": "RRFYSQIVKKSVKIKRMSVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000325", "url": "https://www.yeastgenome.org/locus/S000000325" }, { "database": "iPTMnet", "id": "P38088", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser7" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "202", "end_pos": "202" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "651", "end_pos": "651" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38088-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38088-1.25.25", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38090-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P38090-1", "length": 596, "uniprot_id": "AGP2_YEAST", "protein_name": "General amino acid permease AGP2", "refseq_ac": "NP_009690", "refseq_name": "Agp2p", "gene_name": "AGP2", "gene_names_uniprotkb": "AGP2; YBR1007", "gene_names_refseq": "AGP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38090", "url": "https://www.uniprot.org/uniprotkb/P38090" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38090" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000336", "url": "https://www.yeastgenome.org/locus/S000000336", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38090", "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": "TITTRIKSIEPSEGWLEPSG", "down_seq": "VGHINTIPEAGDVHVDEHED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000336", "url": "https://www.yeastgenome.org/locus/S000000336" }, { "database": "iPTMnet", "id": "P38090", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38090" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser45" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "45", "end_pos": "45" } ] } ], "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": "P38109-1.163.163", "start_pos": 163, "end_pos": 163, "uniprot_canonical_ac": "P38109-1", "length": 508, "uniprot_id": "ATG42_YEAST", "protein_name": "Vacuolar serine-type carboxypeptidase ATG42", "refseq_ac": "NP_009697", "refseq_name": "carboxypeptidase C", "gene_name": "ATG42", "gene_names_uniprotkb": "ATG42; YBR1015", "gene_names_refseq": "ATG42", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A newly characterized vacuolar serine carboxypeptidase, Atg42/Ybr139w, is required for normal vacuole function and the terminal steps of autophagy in the yeast Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2018-05-01", "authors": "Parzych Katherine R, Ariosa Aileen, Mari Muriel, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109#ptm_processing" }, { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "reference": [ { "type": "PubMed", "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "crossref": [ { "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "PRU00498", "url": "https://prosite.expasy.org/rule/PRU00498", "database": "PROSITE-ProRule", "categories": [ "Other" ] }, { "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "GPSSIGADMKPIHNPYSWNN", "down_seq": "ASMIFLEQPLGVGFSYGDEK", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "reported", "site_category_dict": { "reported": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn163", "evidence": [ { "id": "P38109", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38109#ptm_processing" }, { "id": "PRU00498", "database": "PROSITE-ProRule", "url": "https://prosite.expasy.org/rule/PRU00498" }, { "id": "29514932", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "Q", "comment": "Reduces the glycolation level.", "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" }, { "database": "PubMed", "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "371", "end_pos": "371" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "474", "end_pos": "474" } ] } ], "categories": [ "glycosylation_flag", "mutagenesis_flag" ], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": true, "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": 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_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38109-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "P38109-1", "length": 508, "uniprot_id": "ATG42_YEAST", "protein_name": "Vacuolar serine-type carboxypeptidase ATG42", "refseq_ac": "NP_009697", "refseq_name": "carboxypeptidase C", "gene_name": "ATG42", "gene_names_uniprotkb": "ATG42; YBR1015", "gene_names_refseq": "ATG42", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A newly characterized vacuolar serine carboxypeptidase, Atg42/Ybr139w, is required for normal vacuole function and the terminal steps of autophagy in the yeast Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2018-05-01", "authors": "Parzych Katherine R, Ariosa Aileen, Mari Muriel, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109#ptm_processing" }, { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "reference": [ { "type": "PubMed", "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "crossref": [ { "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "PRU00498", "url": "https://prosite.expasy.org/rule/PRU00498", "database": "PROSITE-ProRule", "categories": [ "Other" ] }, { "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "GHYIPQIAHEIVVKNPERTF", "down_seq": "LTSVMIGNGITDPLIQADYY", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "reported", "site_category_dict": { "reported": true }, "site_seq": "N", "relation": "attached", "comment": "N-linked (GlcNAc...) asparagine", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn242", "evidence": [ { "id": "P38109", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38109#ptm_processing" }, { "id": "PRU00498", "database": "PROSITE-ProRule", "url": "https://prosite.expasy.org/rule/PRU00498" }, { "id": "29514932", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "Q", "comment": "Reduces the glycolation level.", "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" }, { "database": "PubMed", "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "371", "end_pos": "371" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "474", "end_pos": "474" } ] } ], "categories": [ "glycosylation_flag", "mutagenesis_flag" ], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": true, "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": 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_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38109-1.339.339", "start_pos": 339, "end_pos": 339, "uniprot_canonical_ac": "P38109-1", "length": 508, "uniprot_id": "ATG42_YEAST", "protein_name": "Vacuolar serine-type carboxypeptidase ATG42", "refseq_ac": "NP_009697", "refseq_name": "carboxypeptidase C", "gene_name": "ATG42", "gene_names_uniprotkb": "ATG42; YBR1015", "gene_names_refseq": "ATG42", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109", "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": "LEPYINTGLNVYDIRGPCED", "down_seq": "STDGMCYTGLRYVDQYMNFP", "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": "Asn339", "evidence": [ { "id": "P38109", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38109#ptm_processing" }, { "id": "PRU00498", "database": "PROSITE-ProRule", "url": "https://prosite.expasy.org/rule/PRU00498" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "371", "end_pos": "371" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "474", "end_pos": "474" } ] } ], "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": "P38109-1.371.371", "start_pos": 371, "end_pos": 371, "uniprot_canonical_ac": "P38109-1", "length": 508, "uniprot_id": "ATG42_YEAST", "protein_name": "Vacuolar serine-type carboxypeptidase ATG42", "refseq_ac": "NP_009697", "refseq_name": "carboxypeptidase C", "gene_name": "ATG42", "gene_names_uniprotkb": "ATG42; YBR1015", "gene_names_refseq": "ATG42", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109", "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": "YVDQYMNFPEVQETLGSDVH", "down_seq": "YSGCDNDVFTGFLFTGDGSK", "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": "Asn371", "evidence": [ { "id": "P38109", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38109#ptm_processing" }, { "id": "PRU00498", "database": "PROSITE-ProRule", "url": "https://prosite.expasy.org/rule/PRU00498" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "371", "end_pos": "371" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "474", "end_pos": "474" } ] } ], "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": "P38109-1.219.219", "start_pos": 219, "end_pos": 219, "uniprot_canonical_ac": "P38109-1", "length": 508, "uniprot_id": "ATG42_YEAST", "protein_name": "Vacuolar serine-type carboxypeptidase ATG42", "refseq_ac": "NP_009697", "refseq_name": "carboxypeptidase C", "gene_name": "ATG42", "gene_names_uniprotkb": "ATG42; YBR1015", "gene_names_refseq": "ATG42", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A newly characterized vacuolar serine carboxypeptidase, Atg42/Ybr139w, is required for normal vacuole function and the terminal steps of autophagy in the yeast Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2018-05-01", "authors": "Parzych Katherine R, Ariosa Aileen, Mari Muriel, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109#ptm_processing" }, { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "reference": [ { "type": "PubMed", "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "crossref": [ { "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ELFFEAFPHLRSNDFHIAGE", "down_seq": "YAGHYIPQIAHEIVVKNPER", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Leads to partial block in enzymatic activity.", "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" }, { "database": "PubMed", "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "371", "end_pos": "371" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "474", "end_pos": "474" } ] } ], "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": "P38109-1.415.415", "start_pos": 415, "end_pos": 415, "uniprot_canonical_ac": "P38109-1", "length": 508, "uniprot_id": "ATG42_YEAST", "protein_name": "Vacuolar serine-type carboxypeptidase ATG42", "refseq_ac": "NP_009697", "refseq_name": "carboxypeptidase C", "gene_name": "ATG42", "gene_names_uniprotkb": "ATG42; YBR1015", "gene_names_refseq": "ATG42", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A newly characterized vacuolar serine carboxypeptidase, Atg42/Ybr139w, is required for normal vacuole function and the terminal steps of autophagy in the yeast Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2018-05-01", "authors": "Parzych Katherine R, Ariosa Aileen, Mari Muriel, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109#ptm_processing" }, { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "reference": [ { "type": "PubMed", "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "crossref": [ { "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "QYIAELLNHNIPVLIYAGDK", "down_seq": "YICNWLGNHAWSNELEWINK", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Leads to partial block in enzymatic activity.", "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" }, { "database": "PubMed", "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "371", "end_pos": "371" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "474", "end_pos": "474" } ] } ], "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": "P38109-1.474.474", "start_pos": 474, "end_pos": 474, "uniprot_canonical_ac": "P38109-1", "length": 508, "uniprot_id": "ATG42_YEAST", "protein_name": "Vacuolar serine-type carboxypeptidase ATG42", "refseq_ac": "NP_009697", "refseq_name": "carboxypeptidase C", "gene_name": "ATG42", "gene_names_uniprotkb": "ATG42; YBR1015", "gene_names_refseq": "ATG42", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A newly characterized vacuolar serine carboxypeptidase, Atg42/Ybr139w, is required for normal vacuole function and the terminal steps of autophagy in the yeast Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2018-05-01", "authors": "Parzych Katherine R, Ariosa Aileen, Mari Muriel, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109#ptm_processing" }, { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" } ], "reference": [ { "type": "PubMed", "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "crossref": [ { "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "ELGQVKNYGPFTFLRIYDAG", "down_seq": "MVPYDQPEASLEMVNSWISG", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "A", "comment": "Leads to partial block in enzymatic activity.", "evidence": [ { "database": "UniProtKB", "id": "P38109", "url": "https://www.uniprot.org/uniprotkb/P38109" }, { "database": "PubMed", "id": "29514932", "url": "https://glygen.org/publication/PubMed/29514932" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "371", "end_pos": "371" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "474", "end_pos": "474" } ] } ], "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": "P38110-1.1319.1319", "start_pos": 1319, "end_pos": 1319, "uniprot_canonical_ac": "P38110-1", "length": 2787, "uniprot_id": "ATM_YEAST", "protein_name": "Serine/threonine-protein kinase TEL1", "refseq_ac": "NP_009465", "refseq_name": "DNA-binding protein kinase TEL1", "gene_name": "TEL1", "gene_names_uniprotkb": "TEL1; YBL0706", "gene_names_refseq": "TEL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A mutation in yeast Tel1p that causes differential effects on the DNA damage checkpoint and telomere maintenance.", "journal": "Current genetics", "date": "2005-11", "authors": "Chakhparonian Mikhail, Faucher David, Wellinger Raymund J", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "reference": [ { "type": "PubMed", "id": "16228207", "url": "https://glygen.org/publication/PubMed/16228207" } ] } ], "crossref": [ { "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16228207", "url": "https://glygen.org/publication/PubMed/16228207", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "STYIGKLRCARELKYLFVLY", "down_seq": "NVLVKSSTLNFIIIRLSKFL", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "K", "comment": "In TEL1-11; short telomere phenotype and impairs DNA-damage checkpoint function at 37 degrees Celsius.", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" }, { "database": "PubMed", "id": "16228207", "url": "https://glygen.org/publication/PubMed/16228207" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1319", "end_pos": "1319" }, { "start_pos": "2611", "end_pos": "2612" }, { "start_pos": "2616", "end_pos": "2616" }, { "start_pos": "2631", "end_pos": "2631" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1804", "end_pos": "1804" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "690", "end_pos": "690" } ] } ], "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": "P38110-1.2611.2612", "start_pos": 2611, "end_pos": 2612, "uniprot_canonical_ac": "P38110-1", "length": 2787, "uniprot_id": "ATM_YEAST", "protein_name": "Serine/threonine-protein kinase TEL1", "refseq_ac": "NP_009465", "refseq_name": "DNA-binding protein kinase TEL1", "gene_name": "TEL1", "gene_names_uniprotkb": "TEL1; YBL0706", "gene_names_refseq": "TEL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Protein kinase activity of Tel1p and Mec1p, two Saccharomyces cerevisiae proteins related to the human ATM protein kinase.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2000", "authors": "Mallory JC, Petes TD", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "reference": [ { "type": "PubMed", "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737" } ] }, { "title": "TEL1, a gene involved in controlling telomere length in S. cerevisiae, is homologous to the human ataxia telangiectasia gene.", "journal": "Cell", "date": "1995-09-08", "authors": "Greenwell P W, Kronmal S L, Porter S E, Gassenhuber J, Obermaier B, Petes T D", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "reference": [ { "type": "PubMed", "id": "7671310", "url": "https://glygen.org/publication/PubMed/7671310" } ] } ], "crossref": [ { "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737", "database": "PubMed", "categories": [ "Other" ] }, { "id": "7671310", "url": "https://glygen.org/publication/PubMed/7671310", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "GD", "start_aa": "G", "up_seq": "KKTYTKGVAASSIVGYILGL", "down_seq": "RHLNNILLDCSTGEPIHIDL", "mutagenesis": [ { "sequence_org": "GD", "sequence_mut": "DA", "comment": "Short telomere phenotype in vivo and impairs kinase activity in vitro; when associated with K-2616 and E-2631.", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" }, { "database": "PubMed", "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737" }, { "database": "PubMed", "id": "7671310", "url": "https://glygen.org/publication/PubMed/7671310" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1319", "end_pos": "1319" }, { "start_pos": "2611", "end_pos": "2612" }, { "start_pos": "2616", "end_pos": "2616" }, { "start_pos": "2631", "end_pos": "2631" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1804", "end_pos": "1804" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "690", "end_pos": "690" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38110-1.2616.2616", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38110-1.2631.2631", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38110-1.2616.2616", "start_pos": 2616, "end_pos": 2616, "uniprot_canonical_ac": "P38110-1", "length": 2787, "uniprot_id": "ATM_YEAST", "protein_name": "Serine/threonine-protein kinase TEL1", "refseq_ac": "NP_009465", "refseq_name": "DNA-binding protein kinase TEL1", "gene_name": "TEL1", "gene_names_uniprotkb": "TEL1; YBL0706", "gene_names_refseq": "TEL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Protein kinase activity of Tel1p and Mec1p, two Saccharomyces cerevisiae proteins related to the human ATM protein kinase.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2000", "authors": "Mallory JC, Petes TD", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "reference": [ { "type": "PubMed", "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737" } ] }, { "title": "TEL1, a gene involved in controlling telomere length in S. cerevisiae, is homologous to the human ataxia telangiectasia gene.", "journal": "Cell", "date": "1995-09-08", "authors": "Greenwell P W, Kronmal S L, Porter S E, Gassenhuber J, Obermaier B, Petes T D", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "reference": [ { "type": "PubMed", "id": "7671310", "url": "https://glygen.org/publication/PubMed/7671310" } ] } ], "crossref": [ { "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737", "database": "PubMed", "categories": [ "Other" ] }, { "id": "7671310", "url": "https://glygen.org/publication/PubMed/7671310", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "KGVAASSIVGYILGLGDRHL", "down_seq": "NILLDCSTGEPIHIDLGIAF", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "K", "comment": "Short telomere phenotype in vivo and impairs kinase activity in vitro; when associated with D-2611-2612-A and E-2631.", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" }, { "database": "PubMed", "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737" }, { "database": "PubMed", "id": "7671310", "url": "https://glygen.org/publication/PubMed/7671310" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1319", "end_pos": "1319" }, { "start_pos": "2611", "end_pos": "2612" }, { "start_pos": "2616", "end_pos": "2616" }, { "start_pos": "2631", "end_pos": "2631" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1804", "end_pos": "1804" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "690", "end_pos": "690" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38110-1.2611.2612", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38110-1.2631.2631", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38110-1.2631.2631", "start_pos": 2631, "end_pos": 2631, "uniprot_canonical_ac": "P38110-1", "length": 2787, "uniprot_id": "ATM_YEAST", "protein_name": "Serine/threonine-protein kinase TEL1", "refseq_ac": "NP_009465", "refseq_name": "DNA-binding protein kinase TEL1", "gene_name": "TEL1", "gene_names_uniprotkb": "TEL1; YBL0706", "gene_names_refseq": "TEL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Protein kinase activity of Tel1p and Mec1p, two Saccharomyces cerevisiae proteins related to the human ATM protein kinase.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2000", "authors": "Mallory JC, Petes TD", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "reference": [ { "type": "PubMed", "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737" } ] }, { "title": "TEL1, a gene involved in controlling telomere length in S. cerevisiae, is homologous to the human ataxia telangiectasia gene.", "journal": "Cell", "date": "1995-09-08", "authors": "Greenwell P W, Kronmal S L, Porter S E, Gassenhuber J, Obermaier B, Petes T D", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "reference": [ { "type": "PubMed", "id": "7671310", "url": "https://glygen.org/publication/PubMed/7671310" } ] } ], "crossref": [ { "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737", "database": "PubMed", "categories": [ "Other" ] }, { "id": "7671310", "url": "https://glygen.org/publication/PubMed/7671310", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "GDRHLNNILLDCSTGEPIHI", "down_seq": "LGIAFDQGKLLPIPELVPFR", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "E", "comment": "Short telomere phenotype in vivo and impairs kinase activity in vitro; when associated with D-2611-2612-A and K-2616.", "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" }, { "database": "PubMed", "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737" }, { "database": "PubMed", "id": "7671310", "url": "https://glygen.org/publication/PubMed/7671310" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1319", "end_pos": "1319" }, { "start_pos": "2611", "end_pos": "2612" }, { "start_pos": "2616", "end_pos": "2616" }, { "start_pos": "2631", "end_pos": "2631" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1804", "end_pos": "1804" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "690", "end_pos": "690" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38110-1.2611.2612", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38110-1.2616.2616", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38110-1.1804.1804", "start_pos": 1804, "end_pos": 1804, "uniprot_canonical_ac": "P38110-1", "length": 2787, "uniprot_id": "ATM_YEAST", "protein_name": "Serine/threonine-protein kinase TEL1", "refseq_ac": "NP_009465", "refseq_name": "DNA-binding protein kinase TEL1", "gene_name": "TEL1", "gene_names_uniprotkb": "TEL1; YBL0706", "gene_names_refseq": "TEL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38110" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000184", "url": "https://www.yeastgenome.org/locus/S000000184", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38110", "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": "LPVPHSIEGVLNSINRIDSD", "down_seq": "WKRFLFNNADFDANYTTSLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000184", "url": "https://www.yeastgenome.org/locus/S000000184" }, { "database": "iPTMnet", "id": "P38110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38110" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1804" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1319", "end_pos": "1319" }, { "start_pos": "2611", "end_pos": "2612" }, { "start_pos": "2616", "end_pos": "2616" }, { "start_pos": "2631", "end_pos": "2631" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1804", "end_pos": "1804" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "690", "end_pos": "690" } ] } ], "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": "P38110-1.689.689", "start_pos": 689, "end_pos": 689, "uniprot_canonical_ac": "P38110-1", "length": 2787, "uniprot_id": "ATM_YEAST", "protein_name": "Serine/threonine-protein kinase TEL1", "refseq_ac": "NP_009465", "refseq_name": "DNA-binding protein kinase TEL1", "gene_name": "TEL1", "gene_names_uniprotkb": "TEL1; YBL0706", "gene_names_refseq": "TEL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "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": "P38110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38110" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38110", "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": "LTRYNEILYRLLENIESDAF", "down_seq": "SPLQKFTWVAKLIQIVDNLC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38110" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser689" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1319", "end_pos": "1319" }, { "start_pos": "2611", "end_pos": "2612" }, { "start_pos": "2616", "end_pos": "2616" }, { "start_pos": "2631", "end_pos": "2631" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1804", "end_pos": "1804" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "690", "end_pos": "690" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38110-1.690.690", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38110-1.690.690", "start_pos": 690, "end_pos": 690, "uniprot_canonical_ac": "P38110-1", "length": 2787, "uniprot_id": "ATM_YEAST", "protein_name": "Serine/threonine-protein kinase TEL1", "refseq_ac": "NP_009465", "refseq_name": "DNA-binding protein kinase TEL1", "gene_name": "TEL1", "gene_names_uniprotkb": "TEL1; YBL0706", "gene_names_refseq": "TEL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38110", "url": "https://www.uniprot.org/uniprotkb/P38110" } ], "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": "P38110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38110" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38110", "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": "TRYNEILYRLLENIESDAFS", "down_seq": "PLQKFTWVAKLIQIVDNLCG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38110" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser690" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1319", "end_pos": "1319" }, { "start_pos": "2611", "end_pos": "2612" }, { "start_pos": "2616", "end_pos": "2616" }, { "start_pos": "2631", "end_pos": "2631" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1804", "end_pos": "1804" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "690", "end_pos": "690" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38110-1.689.689", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38111-1.1179.1179", "start_pos": 1179, "end_pos": 1179, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of mec1 kinase-deficient mutants and of new hypomorphic mec1 alleles impairing subsets of the DNA damage response pathway.", "journal": "Molecular and cellular biology", "date": "2001-06", "authors": "Paciotti V, Clerici M, Scotti M, Lucchini G, Longhese M P", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "crossref": [ { "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "VINDILVPAFWQSENPSKQL", "down_seq": "VALVIQESLKYCGLSSESWD", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "S", "comment": "In MEC1-100; impairs both the G1/S and intra-S damage checkpoints but not the G2/M damage checkpoint; when associated with S-1700.", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "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": "P38111-1.1700.1700", "start_pos": 1700, "end_pos": 1700, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of mec1 kinase-deficient mutants and of new hypomorphic mec1 alleles impairing subsets of the DNA damage response pathway.", "journal": "Molecular and cellular biology", "date": "2001-06", "authors": "Paciotti V, Clerici M, Scotti M, Lucchini G, Longhese M P", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "crossref": [ { "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "EQADADLGKTFFTLAQLARN", "down_seq": "ARLDIASESLMHCLERRLPQ", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "S", "comment": "In MEC1-100; impairs both the G1/S and intra-S damage checkpoints but not the G2/M damage checkpoint; when associated with S-1179.", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "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": "P38111-1.2224.2224", "start_pos": 2224, "end_pos": 2224, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of mec1 kinase-deficient mutants and of new hypomorphic mec1 alleles impairing subsets of the DNA damage response pathway.", "journal": "Molecular and cellular biology", "date": "2001-06", "authors": "Paciotti V, Clerici M, Scotti M, Lucchini G, Longhese M P", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] }, { "title": "Protein kinase activity of Tel1p and Mec1p, two Saccharomyces cerevisiae proteins related to the human ATM protein kinase.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2000", "authors": "Mallory JC, Petes TD", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737" } ] } ], "crossref": [ { "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899", "database": "PubMed", "categories": [ "Other" ] }, { "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "NTYARSYAVMAMVGHILGLG", "down_seq": "RHCENILLDIQTGKVLHVDF", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Impairs kinase activity; when associated with K-2229.", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" }, { "database": "PubMed", "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38111-1.2229.2229", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38111-1.2243.2243", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38111-1.2229.2229", "start_pos": 2229, "end_pos": 2229, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Protein kinase activity of Tel1p and Mec1p, two Saccharomyces cerevisiae proteins related to the human ATM protein kinase.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2000", "authors": "Mallory JC, Petes TD", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737" } ] } ], "crossref": [ { "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SYAVMAMVGHILGLGDRHCE", "down_seq": "ILLDIQTGKVLHVDFDCLFE", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "K", "comment": "Impairs kinase activity; when associated with A-2224.", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "PubMed", "id": "11095737", "url": "https://glygen.org/publication/PubMed/11095737" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38111-1.2224.2224", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38111-1.2243.2243", "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": "P38111-1.2243.2243", "start_pos": 2243, "end_pos": 2243, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of mec1 kinase-deficient mutants and of new hypomorphic mec1 alleles impairing subsets of the DNA damage response pathway.", "journal": "Molecular and cellular biology", "date": "2001-06", "authors": "Paciotti V, Clerici M, Scotti M, Lucchini G, Longhese M P", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "crossref": [ { "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "GDRHCENILLDIQTGKVLHV", "down_seq": "FDCLFEKGKRLPVPEIVPFR", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "E", "comment": "Impairs kinase activity.", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38111-1.2224.2224", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38111-1.2229.2229", "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": "P38111-1.225.225", "start_pos": 225, "end_pos": 225, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of mec1 kinase-deficient mutants and of new hypomorphic mec1 alleles impairing subsets of the DNA damage response pathway.", "journal": "Molecular and cellular biology", "date": "2001-06", "authors": "Paciotti V, Clerici M, Scotti M, Lucchini G, Longhese M P", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "crossref": [ { "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "SLGFTKFDFNFQRLIRIVLY", "down_seq": "FDSCELAALEYAEIQLKYIS", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "G", "comment": "In MEC1-101; impairs both the G1/S and intra-S damage checkpoints but not the G2/M damage checkpoint; when associated with P-552 and S-781.", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "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": "P38111-1.2360.2362", "start_pos": 2360, "end_pos": 2362, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Role of the C terminus of Mec1 checkpoint kinase in its localization to sites of DNA damage.", "journal": "Molecular biology of the cell", "date": "2005", "authors": "Nakada D, Hirano Y, Tanaka Y, Sugimoto K", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "16148046", "url": "https://glygen.org/publication/PubMed/16148046" } ] } ], "crossref": [ { "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16148046", "url": "https://glygen.org/publication/PubMed/16148046", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "MYI", "start_aa": "M", "up_seq": "VAGQTETLIQEATSEDNLSK", "down_seq": "GWLPFW", "mutagenesis": [ { "sequence_org": "MYI", "sequence_mut": "AAA", "comment": "In MEC1-85; disrupts interaction with RFA1 and severely impairs kinase activity.", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "PubMed", "id": "16148046", "url": "https://glygen.org/publication/PubMed/16148046" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38111-1.2367.2368", "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": "P38111-1.2367.2368", "start_pos": 2367, "end_pos": 2368, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Role of the C terminus of Mec1 checkpoint kinase in its localization to sites of DNA damage.", "journal": "Molecular biology of the cell", "date": "2005", "authors": "Nakada D, Hirano Y, Tanaka Y, Sugimoto K", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "16148046", "url": "https://glygen.org/publication/PubMed/16148046" } ] } ], "crossref": [ { "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16148046", "url": "https://glygen.org/publication/PubMed/16148046", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "FW", "start_aa": "F", "up_seq": "LIQEATSEDNLSKMYIGWLP", "down_seq": "", "mutagenesis": [ { "sequence_org": "FW", "sequence_mut": "AA", "comment": "In MEC1-87; decreases the level of MEC1 and impairs viability.", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "PubMed", "id": "16148046", "url": "https://glygen.org/publication/PubMed/16148046" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38111-1.2360.2362", "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": "P38111-1.552.552", "start_pos": 552, "end_pos": 552, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of mec1 kinase-deficient mutants and of new hypomorphic mec1 alleles impairing subsets of the DNA damage response pathway.", "journal": "Molecular and cellular biology", "date": "2001-06", "authors": "Paciotti V, Clerici M, Scotti M, Lucchini G, Longhese M P", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "crossref": [ { "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IDEFSESLLSGILFSLHRIF", "down_seq": "HFQPPKLTDGNGQINKSFKL", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "P", "comment": "In MEC1-101; impairs both the G1/S and intra-S damage checkpoints but not the G2/M damage checkpoint; when associated with S-225 and S-781.", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "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": "P38111-1.781.781", "start_pos": 781, "end_pos": 781, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of mec1 kinase-deficient mutants and of new hypomorphic mec1 alleles impairing subsets of the DNA damage response pathway.", "journal": "Molecular and cellular biology", "date": "2001-06", "authors": "Paciotti V, Clerici M, Scotti M, Lucchini G, Longhese M P", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "reference": [ { "type": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "crossref": [ { "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "VNLLKKNSRQIFAVALVKHG", "down_seq": "FSLDILETLFLNRAPTFDKG", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "S", "comment": "In MEC1-101; impairs both the G1/S and intra-S damage checkpoints but not the G2/M damage checkpoint; when associated with S-225 and P-552.", "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "PubMed", "id": "11359899", "url": "https://glygen.org/publication/PubMed/11359899" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "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": "P38111-1.117.117", "start_pos": 117, "end_pos": 117, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "FEIQRLIDDFLNISVLNYDN", "down_seq": "HRIWFMRRKLGSWCKACVEF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340" }, { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Tyr117" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "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": "P38111-1.1964.1964", "start_pos": 1964, "end_pos": 1964, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1ATR Autophosphorylation and Ddc2ATRIP Phosphorylation Regulates DNA Damage Checkpoint Signaling.", "journal": "Cell reports", "date": "2019-07-23", "authors": "Memisoglu Gonen, Lanz Michael C, Eapen Vinay V, Jordan Jacqueline M, Lee Kihoon, Smolka Marcus B, Haber James E", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "31340146", "url": "https://glygen.org/publication/PubMed/31340146" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "31340146", "url": "https://glygen.org/publication/PubMed/31340146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNSSKRVLRGKHILEKYRQH", "down_seq": "QNPHDLVSSALDLTKALTRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340" }, { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "31340146", "url": "https://glygen.org/publication/PubMed/31340146" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1964" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "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": "P38111-1.1991.1991", "start_pos": 1991, "end_pos": 1991, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A regulatory phosphorylation site on Mec1 controls chromatin occupancy of RNA polymerases during replication stress.", "journal": "The EMBO journal", "date": "2021-11-02", "authors": "Hurst Verena, Challa Kiran, Jonas Felix, Forey Romain, Sack Ragna, Seebacher Jan, Schmid Christoph D, Barkai Naama, Shimada Kenji, Gasser Susan M, Poli J\u00e9r\u00f4me", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "34569643", "url": "https://glygen.org/publication/PubMed/34569643" } ] } ], "crossref": [ { "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "34569643", "url": "https://glygen.org/publication/PubMed/34569643", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VSSALDLTKALTRVCLQDVK", "down_seq": "ITSRSGKSLEKDFKFDMNVA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340" }, { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "34569643", "url": "https://glygen.org/publication/PubMed/34569643" } ], "site_lbl": "Ser1991" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38111-1.1994.1994", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38111-1.1994.1994", "start_pos": 1994, "end_pos": 1994, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ALDLTKALTRVCLQDVKSIT", "down_seq": "RSGKSLEKDFKFDMNVAPSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340" } ], "site_lbl": "Ser1994" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38111-1.1991.1991", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38111-1.336.336", "start_pos": 336, "end_pos": 336, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mek1 kinase activity functions downstream of RED1 in the regulation of meiotic double strand break repair in budding yeast.", "journal": "Molecular biology of the cell", "date": "2004-01", "authors": "Wan Lihong, de los Santos Teresa, Zhang Chao, Shokat Kevan, Hollingsworth Nancy M", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "14595109", "url": "https://glygen.org/publication/PubMed/14595109" } ] } ], "crossref": [ { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "14595109", "url": "https://glygen.org/publication/PubMed/14595109", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VDHFPIDQWADFSQSEHFPF", "down_seq": "QLTNKALSIVYFDLKRRSLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "14595109", "url": "https://glygen.org/publication/PubMed/14595109" } ], "site_lbl": "Thr336" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "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": "P38111-1.36.36", "start_pos": 36, "end_pos": 36, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "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": "KDLNSGVDSKVQIKKVPTDP", "down_seq": "SSQEYAKSLKILNTLIRNLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340" }, { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser36" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38111-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38111-1.38.38", "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": "P38111-1.378.378", "start_pos": 378, "end_pos": 378, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A truncated DNA-damage-signaling response is activated after DSB formation in the G1 phase of Saccharomyces cerevisiae.", "journal": "Nucleic acids research", "date": "2010-04", "authors": "Janke Ryan, Herzberg Kristina, Rolfsmeier Michael, Mar Jordan, Bashkirov Vladimir I, Haghnazari Edwin, Cantin Greg, Yates John R, Heyer Wolf-Dietrich", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "20061370", "url": "https://glygen.org/publication/PubMed/20061370" } ] } ], "crossref": [ { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20061370", "url": "https://glygen.org/publication/PubMed/20061370", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EALKYDNKFNIWVYQSEPDS", "down_seq": "LKNVTSPFDDRYKQLEKLRL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "20061370", "url": "https://glygen.org/publication/PubMed/20061370" } ], "site_lbl": "Ser378" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "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": "P38111-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "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": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340", "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": "DLNSGVDSKVQIKKVPTDPS", "down_seq": "SQEYAKSLKILNTLIRNLKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser37" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38111-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38111-1.38.38", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38111-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "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": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" }, { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "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": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340", "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": "LNSGVDSKVQIKKVPTDPSS", "down_seq": "QEYAKSLKILNTLIRNLKDQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P38110-1", "kinase_gene_name": "TEL1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "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": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ], "site_lbl": "Ser38" }, { "kinase_uniprot_canonical_ac": "P38111-1", "kinase_gene_name": "MEC1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "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": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ], "site_lbl": "Ser38" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340" }, { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "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": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" }, { "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": "Ser38" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38111-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38111-1.37.37", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_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": "P38111-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "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": "RNLKDQRRNNIMKNDTIFSK", "down_seq": "VSALALLLEYNPFLLVMKDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340" }, { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Thr73" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "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": "P38111-1.990.990", "start_pos": 990, "end_pos": 990, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "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": "IAFILQKWSEFNGKLRNIVY", "down_seq": "ILDTLIKEKSDLILKLKPYT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340" }, { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Ser990" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38111-1.994.994", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38111-1.994.994", "start_pos": 994, "end_pos": 994, "uniprot_canonical_ac": "P38111-1", "length": 2368, "uniprot_id": "ATR_YEAST", "protein_name": "Serine/threonine-protein kinase MEC1", "refseq_ac": "NP_009694", "refseq_name": "protein kinase MEC1", "gene_name": "MEC1", "gene_names_uniprotkb": "MEC1; ESR1; SAD3; YBR1012", "gene_names_refseq": "ESR1; MEC1; RAD31; SAD3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38111", "url": "https://www.uniprot.org/uniprotkb/P38111" } ], "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": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111", "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": "LQKWSEFNGKLRNIVYSILD", "down_seq": "LIKEKSDLILKLKPYTTLAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000340", "url": "https://www.yeastgenome.org/locus/S000000340" }, { "database": "iPTMnet", "id": "P38111", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38111" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Thr994" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "1179", "end_pos": "1179" }, { "start_pos": "1700", "end_pos": "1700" }, { "start_pos": "2224", "end_pos": "2224" }, { "start_pos": "2229", "end_pos": "2229" }, { "start_pos": "2243", "end_pos": "2243" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2360", "end_pos": "2362" }, { "start_pos": "2367", "end_pos": "2368" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "781", "end_pos": "781" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "1964", "end_pos": "1964" }, { "start_pos": "1991", "end_pos": "1991" }, { "start_pos": "1994", "end_pos": "1994" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "990", "end_pos": "990" }, { "start_pos": "994", "end_pos": "994" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38111-1.990.990", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.218.218", "start_pos": 218, "end_pos": 218, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mak5p, which is required for the maintenance of the M1 dsRNA virus, is encoded by the yeast ORF YBR142w and is involved in the biogenesis of the 60S subunit of the ribosome.", "journal": "Molecular genetics and genomics : MGG", "date": "2003-11", "authors": "Zagulski M, Kressler D, B\u00e9cam A-M, Rytka J, Herbert C J", "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "reference": [ { "type": "PubMed", "id": "13680366", "url": "https://glygen.org/publication/PubMed/13680366" } ] } ], "crossref": [ { "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "13680366", "url": "https://glygen.org/publication/PubMed/13680366", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "QKKSIPVIMQGVDVMGKAST", "down_seq": "SGKTLAYGIPIVEKLISNFS", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "Delays the appearance and decreases the level of 25S rRNA.", "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "PubMed", "id": "13680366", "url": "https://glygen.org/publication/PubMed/13680366" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38112-1.201.201", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "DSESELLEFKNLDDIKEGEL", "down_seq": "AASYSSSDEDEQGNIESSKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "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": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38112-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38112-1.97.97", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38112-1.121.121", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.121.121", "start_pos": 121, "end_pos": 121, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "EFKNLDDIKEGELSAASYSS", "down_seq": "DEDEQGNIESSKLTDPSEDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser121" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38112-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38112-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38112-1.138.138", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.135.135", "start_pos": 135, "end_pos": 135, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112", "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "AASYSSSDEDEQGNIESSKL", "down_seq": "DPSEDVDEDVDEDVLKENVF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "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": "Thr135" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38112-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38112-1.138.138", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38112-1.138.138", "start_pos": 138, "end_pos": 138, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112", "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "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": "YSSSDEDEQGNIESSKLTDP", "down_seq": "EDVDEDVDEDVLKENVFNKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser138" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38112-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38112-1.135.135", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38112-1.201.201", "start_pos": 201, "end_pos": 201, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "TILQSLQNLNFLRPTEIQKK", "down_seq": "IPVIMQGVDVMGKASTGSGK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser201" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P38112-1.218.218", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "YSILSLTGGLSIQKQQRLLK", "down_seq": "DNSGQIVIATPGRFLELLEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr296" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "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": "P38112-1.436.436", "start_pos": 436, "end_pos": 436, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "SKIHFNSKPVIIDTNPESKV", "down_seq": "SQIKESLIECPPLERDLYCY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser436" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "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": "P38112-1.575.575", "start_pos": 575, "end_pos": 575, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HLPRSTDIYIHRSGRTARAG", "down_seq": "EGVSAMICSPQESMGPLRKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" } ], "site_lbl": "Ser575" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P38112-1.584.584", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.584.584", "start_pos": 584, "end_pos": 584, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "IHRSGRTARAGSEGVSAMIC", "down_seq": "PQESMGPLRKLRKTLATKNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser584" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38112-1.575.575", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.657.657", "start_pos": 657, "end_pos": 657, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "QLRERSRLAGELADHEIASN", "down_seq": "LRKDDNWLKKAADELGIDVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser657" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "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": "P38112-1.678.678", "start_pos": 678, "end_pos": 678, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112", "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "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": "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": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LRKDDNWLKKAADELGIDVD", "down_seq": "DEDDISKSNSDTFLLKNKNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "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": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser678" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38112-1.684.684", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38112-1.686.686", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38112-1.688.688", "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": 15 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.684.684", "start_pos": 684, "end_pos": 684, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "WLKKAADELGIDVDSDEDDI", "down_seq": "KSNSDTFLLKNKNKKMQKTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser684" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38112-1.678.678", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38112-1.686.686", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38112-1.688.688", "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": "P38112-1.686.686", "start_pos": 686, "end_pos": 686, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "KKAADELGIDVDSDEDDISK", "down_seq": "NSDTFLLKNKNKKMQKTINK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser686" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38112-1.678.678", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38112-1.684.684", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38112-1.688.688", "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": "P38112-1.688.688", "start_pos": 688, "end_pos": 688, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "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": "AADELGIDVDSDEDDISKSN", "down_seq": "DTFLLKNKNKKMQKTINKDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser688" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38112-1.678.678", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38112-1.684.684", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38112-1.686.686", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.752.752", "start_pos": 752, "end_pos": 752, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "YLTGGLVNLADNLVKKRGHN", "down_seq": "IIGHEKTNALETLKKKKKRN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser752" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "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": "P38112-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "KVVDGKVTFVTKKDSKVLKD", "down_seq": "NKEKVGDDQESVENESGSDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser75" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P38112-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38112-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38112-1.93.93", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38112-1.95.95", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "KKDSKVLKDSNKEKVGDDQE", "down_seq": "VENESGSDSESELLEFKNLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser86" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38112-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38112-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38112-1.93.93", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38112-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38112-1.97.97", "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": "P38112-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "VLKDSNKEKVGDDQESVENE", "down_seq": "GSDSESELLEFKNLDDIKEG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser91" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38112-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38112-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38112-1.93.93", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38112-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38112-1.97.97", "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": "P38112-1.93.93", "start_pos": 93, "end_pos": 93, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "KDSNKEKVGDDQESVENESG", "down_seq": "DSESELLEFKNLDDIKEGEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser93" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38112-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38112-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38112-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38112-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38112-1.97.97", "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": "P38112-1.95.95", "start_pos": 95, "end_pos": 95, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "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": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "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": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "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": "SNKEKVGDDQESVENESGSD", "down_seq": "ESELLEFKNLDDIKEGELSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser95" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38112-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38112-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38112-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38112-1.93.93", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38112-1.97.97", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38112-1.114.114", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38112-1.97.97", "start_pos": 97, "end_pos": 97, "uniprot_canonical_ac": "P38112-1", "length": 773, "uniprot_id": "MAK5_YEAST", "protein_name": "ATP-dependent RNA helicase MAK5", "refseq_ac": "NP_009700", "refseq_name": "ATP-dependent RNA helicase", "gene_name": "MAK5", "gene_names_uniprotkb": "MAK5; YBR1119", "gene_names_refseq": "MAK5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38112", "url": "https://www.uniprot.org/uniprotkb/P38112" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112", "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": "KEKVGDDQESVENESGSDSE", "down_seq": "ELLEFKNLDDIKEGELSAAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000346", "url": "https://www.yeastgenome.org/locus/S000000346" }, { "database": "iPTMnet", "id": "P38112", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38112" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser97" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "218", "end_pos": "218" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "684", "end_pos": "684" }, { "start_pos": "686", "end_pos": "686" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "752", "end_pos": "752" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "93", "end_pos": "93" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38112-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38112-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38112-1.93.93", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38112-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38112-1.114.114", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38115-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P38115-1", "length": 344, "uniprot_id": "ARA1_YEAST", "protein_name": "D-arabinose dehydrogenase [NAD(P)+] heavy chain", "refseq_ac": "NP_009707", "refseq_name": "D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA1", "gene_name": "ARA1", "gene_names_uniprotkb": "ARA1; YBR1127", "gene_names_refseq": "ARA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115", "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": "REDLFITTKVWPVLWDEVDR", "down_seq": "LNESLKALGLEYVDLLLQHW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353" }, { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser112" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38115-1.151.151", "start_pos": 151, "end_pos": 151, "uniprot_canonical_ac": "P38115-1", "length": 344, "uniprot_id": "ARA1_YEAST", "protein_name": "D-arabinose dehydrogenase [NAD(P)+] heavy chain", "refseq_ac": "NP_009707", "refseq_name": "D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA1", "gene_name": "ARA1", "gene_names_uniprotkb": "ARA1; YBR1127", "gene_names_refseq": "ARA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" } ], "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": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" }, { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "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": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" }, { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "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": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "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": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115", "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": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353", "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": "HWPLCFEKIKDPKGISGLVK", "down_seq": "PVDDSGKTMYAADGDYLETY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" }, { "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": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" }, { "database": "SGD", "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353" }, { "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": "Thr151" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38115-1.293.293", "start_pos": 293, "end_pos": 293, "uniprot_canonical_ac": "P38115-1", "length": 344, "uniprot_id": "ARA1_YEAST", "protein_name": "D-arabinose dehydrogenase [NAD(P)+] heavy chain", "refseq_ac": "NP_009707", "refseq_name": "D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA1", "gene_name": "ARA1", "gene_names_uniprotkb": "ARA1; YBR1127", "gene_names_refseq": "ARA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115", "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": "SYHIRQGTIVIPRSLNPVRI", "down_seq": "SSIEFASLTKDELQELNDFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353" }, { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" }, { "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": "112", "end_pos": "112" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38115-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38115-1.295.295", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38115-1.294.294", "start_pos": 294, "end_pos": 294, "uniprot_canonical_ac": "P38115-1", "length": 344, "uniprot_id": "ARA1_YEAST", "protein_name": "D-arabinose dehydrogenase [NAD(P)+] heavy chain", "refseq_ac": "NP_009707", "refseq_name": "D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA1", "gene_name": "ARA1", "gene_names_uniprotkb": "ARA1; YBR1127", "gene_names_refseq": "ARA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" } ], "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": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" }, { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "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": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353", "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": "YHIRQGTIVIPRSLNPVRIS", "down_seq": "SIEFASLTKDELQELNDFGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser294" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38115-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38115-1.295.295", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38115-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P38115-1", "length": 344, "uniprot_id": "ARA1_YEAST", "protein_name": "D-arabinose dehydrogenase [NAD(P)+] heavy chain", "refseq_ac": "NP_009707", "refseq_name": "D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA1", "gene_name": "ARA1", "gene_names_uniprotkb": "ARA1; YBR1127", "gene_names_refseq": "ARA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115", "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": "HIRQGTIVIPRSLNPVRISS", "down_seq": "IEFASLTKDELQELNDFGEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353" }, { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser295" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38115-1.293.293", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38115-1.294.294", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38115-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P38115-1", "length": 344, "uniprot_id": "ARA1_YEAST", "protein_name": "D-arabinose dehydrogenase [NAD(P)+] heavy chain", "refseq_ac": "NP_009707", "refseq_name": "D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA1", "gene_name": "ARA1", "gene_names_uniprotkb": "ARA1; YBR1127", "gene_names_refseq": "ARA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" } ], "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": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115", "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": "M", "down_seq": "SSVASTENIVENMLHPKTTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38115-1.7.7", "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": "P38115-1.333.333", "start_pos": 333, "end_pos": 333, "uniprot_canonical_ac": "P38115-1", "length": 344, "uniprot_id": "ARA1_YEAST", "protein_name": "D-arabinose dehydrogenase [NAD(P)+] heavy chain", "refseq_ac": "NP_009707", "refseq_name": "D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA1", "gene_name": "ARA1", "gene_names_uniprotkb": "ARA1; YBR1127", "gene_names_refseq": "ARA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115", "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": "GEKYPVRFIDEPFAAILPEF", "down_seq": "GNGPNLDNLKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353" }, { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr333" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38115-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "P38115-1", "length": 344, "uniprot_id": "ARA1_YEAST", "protein_name": "D-arabinose dehydrogenase [NAD(P)+] heavy chain", "refseq_ac": "NP_009707", "refseq_name": "D-arabinose 1-dehydrogenase (NAD(P)(+)) ARA1", "gene_name": "ARA1", "gene_names_uniprotkb": "ARA1; YBR1127", "gene_names_refseq": "ARA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38115", "url": "https://www.uniprot.org/uniprotkb/P38115" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115", "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": "MSSSVA", "down_seq": "TENIVENMLHPKTTEIYFSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000353", "url": "https://www.yeastgenome.org/locus/S000000353" }, { "database": "iPTMnet", "id": "P38115", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38115" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser7" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38115-1.2.2", "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": "P38116-1.155.155", "start_pos": 155, "end_pos": 155, "uniprot_canonical_ac": "P38116-1", "length": 183, "uniprot_id": "ARL1_YEAST", "protein_name": "ADP-ribosylation factor-like protein 1", "refseq_ac": "NP_009723", "refseq_name": "Arf family GTPase ARL1", "gene_name": "ARL1", "gene_names_uniprotkb": "ARL1; ARF3; YBR1216", "gene_names_refseq": "ARL1; DLP2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38116", "url": "https://www.uniprot.org/uniprotkb/P38116" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38116", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38116" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000368", "url": "https://www.yeastgenome.org/locus/S000000368", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38116", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38116", "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": "LSASEVSKELNLVELKDRSW", "down_seq": "IVASSAIKGEGITEGLDWLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000368", "url": "https://www.yeastgenome.org/locus/S000000368" }, { "database": "iPTMnet", "id": "P38116", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38116" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser155" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" } ] } ], "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": "P38128-1.348.348", "start_pos": 348, "end_pos": 348, "uniprot_canonical_ac": "P38128-1", "length": 452, "uniprot_id": "SMP1_YEAST", "protein_name": "Transcription factor SMP1", "refseq_ac": "NP_009741", "refseq_name": "Smp1p", "gene_name": "SMP1", "gene_names_uniprotkb": "SMP1; YBR1245", "gene_names_refseq": "SMP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Targeting the MEF2-like transcription factor Smp1 by the stress-activated Hog1 mitogen-activated protein kinase.", "journal": "Molecular and cellular biology", "date": "2003-01", "authors": "de Nadal Eul\u00e0lia, Casadom\u00e9 Laura, Posas Francesc", "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" }, { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976" } ] } ], "crossref": [ { "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SGKPYLKLNIPKATNDACQR", "down_seq": "PAMYSGTASPKTDVQATPNQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" }, { "database": "PubMed", "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976" }, { "database": "SGD", "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386" } ], "site_lbl": "Ser348" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "348", "end_pos": "348" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "425", "end_pos": "425" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38128-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38128-1.355.355", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38128-1.357.357", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38128-1.365.365", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38128-1.353.353", "start_pos": 353, "end_pos": 353, "uniprot_canonical_ac": "P38128-1", "length": 452, "uniprot_id": "SMP1_YEAST", "protein_name": "Transcription factor SMP1", "refseq_ac": "NP_009741", "refseq_name": "Smp1p", "gene_name": "SMP1", "gene_names_uniprotkb": "SMP1; YBR1245", "gene_names_refseq": "SMP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128", "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": "LKLNIPKATNDACQRSPAMY", "down_seq": "GTASPKTDVQATPNQMLASN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386" }, { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser353" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "348", "end_pos": "348" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "425", "end_pos": "425" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38128-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38128-1.355.355", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38128-1.357.357", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38128-1.365.365", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38128-1.355.355", "start_pos": 355, "end_pos": 355, "uniprot_canonical_ac": "P38128-1", "length": 452, "uniprot_id": "SMP1_YEAST", "protein_name": "Transcription factor SMP1", "refseq_ac": "NP_009741", "refseq_name": "Smp1p", "gene_name": "SMP1", "gene_names_uniprotkb": "SMP1; YBR1245", "gene_names_refseq": "SMP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128", "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": "LNIPKATNDACQRSPAMYSG", "down_seq": "ASPKTDVQATPNQMLASNMS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386" }, { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr355" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "348", "end_pos": "348" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "425", "end_pos": "425" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38128-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38128-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38128-1.357.357", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38128-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38128-1.375.375", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38128-1.357.357", "start_pos": 357, "end_pos": 357, "uniprot_canonical_ac": "P38128-1", "length": 452, "uniprot_id": "SMP1_YEAST", "protein_name": "Transcription factor SMP1", "refseq_ac": "NP_009741", "refseq_name": "Smp1p", "gene_name": "SMP1", "gene_names_uniprotkb": "SMP1; YBR1245", "gene_names_refseq": "SMP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Targeting the MEF2-like transcription factor Smp1 by the stress-activated Hog1 mitogen-activated protein kinase.", "journal": "Molecular and cellular biology", "date": "2003-01", "authors": "de Nadal Eul\u00e0lia, Casadom\u00e9 Laura, Posas Francesc", "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" }, { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386", "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": "IPKATNDACQRSPAMYSGTA", "down_seq": "PKTDVQATPNQMLASNMSSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" }, { "database": "PubMed", "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976" }, { "database": "SGD", "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser357" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "348", "end_pos": "348" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "425", "end_pos": "425" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38128-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38128-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38128-1.355.355", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38128-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38128-1.375.375", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38128-1.376.376", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38128-1.365.365", "start_pos": 365, "end_pos": 365, "uniprot_canonical_ac": "P38128-1", "length": 452, "uniprot_id": "SMP1_YEAST", "protein_name": "Transcription factor SMP1", "refseq_ac": "NP_009741", "refseq_name": "Smp1p", "gene_name": "SMP1", "gene_names_uniprotkb": "SMP1; YBR1245", "gene_names_refseq": "SMP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Targeting the MEF2-like transcription factor Smp1 by the stress-activated Hog1 mitogen-activated protein kinase.", "journal": "Molecular and cellular biology", "date": "2003-01", "authors": "de Nadal Eul\u00e0lia, Casadom\u00e9 Laura, Posas Francesc", "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" }, { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976" } ] }, { "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": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "CQRSPAMYSGTASPKTDVQA", "down_seq": "PNQMLASNMSSPLSRSKFLG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" }, { "database": "PubMed", "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386" } ], "site_lbl": "Thr365" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "348", "end_pos": "348" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "425", "end_pos": "425" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38128-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38128-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38128-1.355.355", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38128-1.357.357", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38128-1.375.375", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38128-1.376.376", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38128-1.375.375", "start_pos": 375, "end_pos": 375, "uniprot_canonical_ac": "P38128-1", "length": 452, "uniprot_id": "SMP1_YEAST", "protein_name": "Transcription factor SMP1", "refseq_ac": "NP_009741", "refseq_name": "Smp1p", "gene_name": "SMP1", "gene_names_uniprotkb": "SMP1; YBR1245", "gene_names_refseq": "SMP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" } ], "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": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128", "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": "TASPKTDVQATPNQMLASNM", "down_seq": "SPLSRSKFLGFKNNDMDDLY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser375" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "348", "end_pos": "348" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "425", "end_pos": "425" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38128-1.355.355", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38128-1.357.357", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38128-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38128-1.376.376", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38128-1.376.376", "start_pos": 376, "end_pos": 376, "uniprot_canonical_ac": "P38128-1", "length": 452, "uniprot_id": "SMP1_YEAST", "protein_name": "Transcription factor SMP1", "refseq_ac": "NP_009741", "refseq_name": "Smp1p", "gene_name": "SMP1", "gene_names_uniprotkb": "SMP1; YBR1245", "gene_names_refseq": "SMP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Targeting the MEF2-like transcription factor Smp1 by the stress-activated Hog1 mitogen-activated protein kinase.", "journal": "Molecular and cellular biology", "date": "2003-01", "authors": "de Nadal Eul\u00e0lia, Casadom\u00e9 Laura, Posas Francesc", "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" }, { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976" } ] } ], "crossref": [ { "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASPKTDVQATPNQMLASNMS", "down_seq": "PLSRSKFLGFKNNDMDDLYH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" }, { "database": "PubMed", "id": "12482976", "url": "https://glygen.org/publication/PubMed/12482976" }, { "database": "SGD", "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386" } ], "site_lbl": "Ser376" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "348", "end_pos": "348" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "425", "end_pos": "425" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38128-1.357.357", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38128-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38128-1.375.375", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38128-1.425.425", "start_pos": 425, "end_pos": 425, "uniprot_canonical_ac": "P38128-1", "length": 452, "uniprot_id": "SMP1_YEAST", "protein_name": "Transcription factor SMP1", "refseq_ac": "NP_009741", "refseq_name": "Smp1p", "gene_name": "SMP1", "gene_names_uniprotkb": "SMP1; YBR1245", "gene_names_refseq": "SMP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38128", "url": "https://www.uniprot.org/uniprotkb/P38128" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128", "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": "VNNKTFFLKPPIGRPPKFPK", "down_seq": "PSSSIVVFPSSVASSTLKST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000386", "url": "https://www.yeastgenome.org/locus/S000000386" }, { "database": "iPTMnet", "id": "P38128", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38128" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser425" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "348", "end_pos": "348" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "425", "end_pos": "425" } ] } ], "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": "P38130-1.182.182", "start_pos": 182, "end_pos": 182, "uniprot_canonical_ac": "P38130-1", "length": 404, "uniprot_id": "KTR3_YEAST", "protein_name": "Probable mannosyltransferase KTR3", "refseq_ac": "NP_009764", "refseq_name": "mannosyltransferase KTR3", "gene_name": "KTR3", "gene_names_uniprotkb": "KTR3; YBR1445", "gene_names_refseq": "KTR3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38130", "url": "https://www.uniprot.org/uniprotkb/P38130" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38130", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38130" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000409", "url": "https://www.yeastgenome.org/locus/S000000409", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38130", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38130", "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": "DTEKFDEKRLAMGKLDIPYG", "down_seq": "SVPYRHMCRFQSGFIWRHPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000409", "url": "https://www.yeastgenome.org/locus/S000000409" }, { "database": "iPTMnet", "id": "P38130", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38130" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser182" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38130-1.183.183", "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": "P38130-1.183.183", "start_pos": 183, "end_pos": 183, "uniprot_canonical_ac": "P38130-1", "length": 404, "uniprot_id": "KTR3_YEAST", "protein_name": "Probable mannosyltransferase KTR3", "refseq_ac": "NP_009764", "refseq_name": "mannosyltransferase KTR3", "gene_name": "KTR3", "gene_names_uniprotkb": "KTR3; YBR1445", "gene_names_refseq": "KTR3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38130", "url": "https://www.uniprot.org/uniprotkb/P38130" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38130", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38130" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000409", "url": "https://www.yeastgenome.org/locus/S000000409", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38130", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38130", "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": "TEKFDEKRLAMGKLDIPYGS", "down_seq": "VPYRHMCRFQSGFIWRHPLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000409", "url": "https://www.yeastgenome.org/locus/S000000409" }, { "database": "iPTMnet", "id": "P38130", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38130" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser183" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "182", "end_pos": "182" }, { "start_pos": "183", "end_pos": "183" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38130-1.182.182", "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": "P38138-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SFLQDHSVRFTINEKERMPT", "down_seq": "SSGLLISSQRFNETWKYAFD", "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": "Asn114", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P38138-1.126.126", "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": "P38138-1.126.126", "start_pos": 126, "end_pos": 126, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "NEKERMPTNSSGLLISSQRF", "down_seq": "ETWKYAFDKKFQEEANRTSI", "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": "Asn126", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38138-1.114.114", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38138-1.142.142", "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": "P38138-1.142.142", "start_pos": 142, "end_pos": 142, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SQRFNETWKYAFDKKFQEEA", "down_seq": "RTSIPQFHFLKQKQTVNSFW", "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": "Asn142", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38138-1.126.126", "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": "P38138-1.173.173", "start_pos": 173, "end_pos": 173, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "KQKQTVNSFWSKISSFLSLS", "down_seq": "STADTFHLRNGDVSVEIFAE", "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": "Asn173", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "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": "P38138-1.345.345", "start_pos": 345, "end_pos": 345, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SIFWVNAADTWVDIKYDTSK", "down_seq": "KTMTHWISENGVIDVVMSLG", "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": "Asn345", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "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": "P38138-1.652.652", "start_pos": 652, "end_pos": 652, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "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": "NNIAGMPFIGADIAGFAEDP", "down_seq": "PELIARWYQAGLWYPFFRAH", "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": "Thr652", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "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": "P38138-1.783.783", "start_pos": 783, "end_pos": 783, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "EMVFPPGIFYEFASLHSFIN", "down_seq": "GTDLIEKNISAPLDKIPLFI", "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": "Asn783", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P38138-1.791.791", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38138-1.793.793", "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": "P38138-1.791.791", "start_pos": 791, "end_pos": 791, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "FYEFASLHSFINNGTDLIEK", "down_seq": "ISAPLDKIPLFIEGGHIITM", "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": "Asn791", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38138-1.783.783", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38138-1.793.793", "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": "P38138-1.867.867", "start_pos": 867, "end_pos": 867, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "DGETFGYQRGEYVETQFIFE", "down_seq": "NTLKNVRSHIPENLTGIHHN", "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": "Asn867", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P38138-1.880.880", "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": 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": "P38138-1.880.880", "start_pos": 880, "end_pos": 880, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "ETQFIFENNTLKNVRSHIPE", "down_seq": "LTGIHHNTLRNTNIEKIIIA", "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": "Asn880", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38138-1.867.867", "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": "P38138-1.907.907", "start_pos": 907, "end_pos": 907, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "NTLRNTNIEKIIIAKNNLQH", "down_seq": "ITLKDSIKVKKNGEESSLPT", "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": "Asn907", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "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": "P38138-1.941.941", "start_pos": 941, "end_pos": 941, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "EESSLPTRSSYENDNKITIL", "down_seq": "LSLDITEDWEVIF", "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": "Asn941", "evidence": [ { "id": "P38138", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38138#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "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": "P38138-1.793.793", "start_pos": 793, "end_pos": 793, "uniprot_canonical_ac": "P38138-1", "length": 954, "uniprot_id": "GLU2A_YEAST", "protein_name": "Glucosidase 2 subunit alpha", "refseq_ac": "NP_009788", "refseq_name": "glucan 1,3-alpha-glucosidase ROT2", "gene_name": "ROT2", "gene_names_uniprotkb": "ROT2; GLS2; YBR1526", "gene_names_refseq": "GLS2; ROT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38138", "url": "https://www.uniprot.org/uniprotkb/P38138" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38138", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38138" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000433", "url": "https://www.yeastgenome.org/locus/S000000433", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38138", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38138", "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": "EFASLHSFINNGTDLIEKNI", "down_seq": "APLDKIPLFIEGGHIITMKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000433", "url": "https://www.yeastgenome.org/locus/S000000433" }, { "database": "iPTMnet", "id": "P38138", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38138" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser793" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "867", "end_pos": "867" }, { "start_pos": "880", "end_pos": "880" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "941", "end_pos": "941" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "793", "end_pos": "793" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38138-1.783.783", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38138-1.791.791", "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": "P38139-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "P38139-1", "length": 375, "uniprot_id": "LDH1_YEAST", "protein_name": "Lipid droplet hydrolase 1", "refseq_ac": "NP_009763", "refseq_name": "triacylglycerol lipase", "gene_name": "LDH1", "gene_names_uniprotkb": "LDH1; YBR1444", "gene_names_refseq": "LDH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38139", "url": "https://www.uniprot.org/uniprotkb/P38139" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Involvement of the Saccharomyces cerevisiae hydrolase Ldh1p in lipid homeostasis.", "journal": "Eukaryotic cell", "date": "2011", "authors": "Debelyy MO, Thoms S, Connerth M, Daum G, Erdmann R", "evidence": [ { "database": "UniProtKB", "id": "P38139", "url": "https://www.uniprot.org/uniprotkb/P38139" } ], "reference": [ { "type": "PubMed", "id": "21478434", "url": "https://glygen.org/publication/PubMed/21478434" } ] } ], "crossref": [ { "id": "P38139", "url": "https://www.uniprot.org/uniprotkb/P38139", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21478434", "url": "https://glygen.org/publication/PubMed/21478434", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VPNNDNVNPFNGHKIVLVGH", "down_seq": "MGCFLACHLYEQHMADTKAV", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Abolishes serine hydrolase activity.", "evidence": [ { "database": "UniProtKB", "id": "P38139", "url": "https://www.uniprot.org/uniprotkb/P38139" }, { "database": "PubMed", "id": "21478434", "url": "https://glygen.org/publication/PubMed/21478434" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "177", "end_pos": "177" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" } ] } ], "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": "P38139-1.14.14", "start_pos": 14, "end_pos": 14, "uniprot_canonical_ac": "P38139-1", "length": 375, "uniprot_id": "LDH1_YEAST", "protein_name": "Lipid droplet hydrolase 1", "refseq_ac": "NP_009763", "refseq_name": "triacylglycerol lipase", "gene_name": "LDH1", "gene_names_uniprotkb": "LDH1; YBR1444", "gene_names_refseq": "LDH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38139", "url": "https://www.uniprot.org/uniprotkb/P38139" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38139" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000408", "url": "https://www.yeastgenome.org/locus/S000000408", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38139", "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": "MNMAERAEATKSW", "down_seq": "CEPLSGKTLEEIVQNAENAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000408", "url": "https://www.yeastgenome.org/locus/S000000408" }, { "database": "iPTMnet", "id": "P38139", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38139" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser14" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "177", "end_pos": "177" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "14", "end_pos": "14" } ] } ], "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": "P38140-1.105.105", "start_pos": 105, "end_pos": 105, "uniprot_canonical_ac": "P38140-1", "length": 529, "uniprot_id": "ERT1_YEAST", "protein_name": "Transcription activator of gluconeogenesis ERT1", "refseq_ac": "NP_009798", "refseq_name": "Ert1p", "gene_name": "ERT1", "gene_names_uniprotkb": "ERT1; YBR1622", "gene_names_refseq": "ERT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38140", "url": "https://www.uniprot.org/uniprotkb/P38140" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000443", "url": "https://www.yeastgenome.org/locus/S000000443", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140", "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": "RELPMNIQPDLPPRKIMIPI", "down_seq": "NNSSNSSLNVNNMGEQQKFT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000443", "url": "https://www.yeastgenome.org/locus/S000000443" }, { "database": "iPTMnet", "id": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr105" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "18", "end_pos": "18" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38140-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38140-1.112.112", "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": "P38140-1.109.109", "start_pos": 109, "end_pos": 109, "uniprot_canonical_ac": "P38140-1", "length": 529, "uniprot_id": "ERT1_YEAST", "protein_name": "Transcription activator of gluconeogenesis ERT1", "refseq_ac": "NP_009798", "refseq_name": "Ert1p", "gene_name": "ERT1", "gene_names_uniprotkb": "ERT1; YBR1622", "gene_names_refseq": "ERT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38140", "url": "https://www.uniprot.org/uniprotkb/P38140" } ], "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": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000443", "url": "https://www.yeastgenome.org/locus/S000000443", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140", "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": "MNIQPDLPPRKIMIPIYNNS", "down_seq": "NSSLNVNNMGEQQKFTSPQH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000443", "url": "https://www.yeastgenome.org/locus/S000000443" }, { "database": "iPTMnet", "id": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser109" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "18", "end_pos": "18" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38140-1.105.105", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38140-1.112.112", "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": "P38140-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P38140-1", "length": 529, "uniprot_id": "ERT1_YEAST", "protein_name": "Transcription activator of gluconeogenesis ERT1", "refseq_ac": "NP_009798", "refseq_name": "Ert1p", "gene_name": "ERT1", "gene_names_uniprotkb": "ERT1; YBR1622", "gene_names_refseq": "ERT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38140", "url": "https://www.uniprot.org/uniprotkb/P38140" } ], "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": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000443", "url": "https://www.yeastgenome.org/locus/S000000443", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140", "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": "QPDLPPRKIMIPIYNNSSNS", "down_seq": "LNVNNMGEQQKFTSPQHIVH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000443", "url": "https://www.yeastgenome.org/locus/S000000443" }, { "database": "iPTMnet", "id": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser112" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "18", "end_pos": "18" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38140-1.105.105", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38140-1.109.109", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38140-1.18.18", "start_pos": 18, "end_pos": 18, "uniprot_canonical_ac": "P38140-1", "length": 529, "uniprot_id": "ERT1_YEAST", "protein_name": "Transcription activator of gluconeogenesis ERT1", "refseq_ac": "NP_009798", "refseq_name": "Ert1p", "gene_name": "ERT1", "gene_names_uniprotkb": "ERT1; YBR1622", "gene_names_refseq": "ERT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38140", "url": "https://www.uniprot.org/uniprotkb/P38140" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000443", "url": "https://www.yeastgenome.org/locus/S000000443", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140", "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": "MCTPDENDYKTSTDPDT", "down_seq": "ANTNHTLEKKKRKKRKNTNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000443", "url": "https://www.yeastgenome.org/locus/S000000443" }, { "database": "iPTMnet", "id": "P38140", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38140" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser18" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "18", "end_pos": "18" } ] } ], "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": "P38143-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "P38143-1", "length": 162, "uniprot_id": "GPX2_YEAST", "protein_name": "Glutathione peroxidase-like peroxiredoxin 2", "refseq_ac": "NP_009803", "refseq_name": "glutathione peroxidase GPX2", "gene_name": "GPX2", "gene_names_uniprotkb": "GPX2; YBR1632", "gene_names_refseq": "AMI1; GPX2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "GPX2, encoding a phospholipid hydroperoxide glutathione peroxidase homologue, codes for an atypical 2-Cys peroxiredoxin in Saccharomyces cerevisiae.", "journal": "The Journal of biological chemistry", "date": "2005-12-23", "authors": "Tanaka Tomoaki, Izawa Shingo, Inoue Yoshiharu", "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" } ], "reference": [ { "type": "PubMed", "id": "16251189", "url": "https://glygen.org/publication/PubMed/16251189" } ] } ], "crossref": [ { "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16251189", "url": "https://glygen.org/publication/PubMed/16251189", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "SFKFDQLKGKVVLIVNVASK", "down_seq": "GFTPQYKELEELYKKYQDKG", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "Prevents oxidation of the protein.", "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" }, { "database": "PubMed", "id": "16251189", "url": "https://glygen.org/publication/PubMed/16251189" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "75", "end_pos": "75" } ] } ], "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": "P38143-1.83.83", "start_pos": 83, "end_pos": 83, "uniprot_canonical_ac": "P38143-1", "length": 162, "uniprot_id": "GPX2_YEAST", "protein_name": "Glutathione peroxidase-like peroxiredoxin 2", "refseq_ac": "NP_009803", "refseq_name": "glutathione peroxidase GPX2", "gene_name": "GPX2", "gene_names_uniprotkb": "GPX2; YBR1632", "gene_names_refseq": "AMI1; GPX2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "GPX2, encoding a phospholipid hydroperoxide glutathione peroxidase homologue, codes for an atypical 2-Cys peroxiredoxin in Saccharomyces cerevisiae.", "journal": "The Journal of biological chemistry", "date": "2005-12-23", "authors": "Tanaka Tomoaki, Izawa Shingo, Inoue Yoshiharu", "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" } ], "reference": [ { "type": "PubMed", "id": "16251189", "url": "https://glygen.org/publication/PubMed/16251189" } ] } ], "crossref": [ { "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16251189", "url": "https://glygen.org/publication/PubMed/16251189", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "FPCNQFGKQEPGSDEQITEF", "down_seq": "QLNYGVTFPIMKKIDVNGSN", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "Prevents oxidation of the protein.", "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" }, { "database": "PubMed", "id": "16251189", "url": "https://glygen.org/publication/PubMed/16251189" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "75", "end_pos": "75" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38143-1.75.75", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38143-1.113.113", "start_pos": 113, "end_pos": 113, "uniprot_canonical_ac": "P38143-1", "length": 162, "uniprot_id": "GPX2_YEAST", "protein_name": "Glutathione peroxidase-like peroxiredoxin 2", "refseq_ac": "NP_009803", "refseq_name": "glutathione peroxidase GPX2", "gene_name": "GPX2", "gene_names_uniprotkb": "GPX2; YBR1632", "gene_names_refseq": "AMI1; GPX2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" } ], "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": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143", "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": "IMKKIDVNGSNADSVYNYLK", "down_seq": "QKAGLLGFKGIKWNFEKFLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Ser113" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "4", "end_pos": "4" }, { "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": "P38143-1.158.158", "start_pos": 158, "end_pos": 158, "uniprot_canonical_ac": "P38143-1", "length": 162, "uniprot_id": "GPX2_YEAST", "protein_name": "Glutathione peroxidase-like peroxiredoxin 2", "refseq_ac": "NP_009803", "refseq_name": "glutathione peroxidase GPX2", "gene_name": "GPX2", "gene_names_uniprotkb": "GPX2; YBR1632", "gene_names_refseq": "AMI1; GPX2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000448", "url": "https://www.yeastgenome.org/locus/S000000448", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143", "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": "KVVQRFSSLTKPSSLDQEIQ", "down_seq": "LLSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000448", "url": "https://www.yeastgenome.org/locus/S000000448" }, { "database": "iPTMnet", "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser158" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "4", "end_pos": "4" }, { "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": "P38143-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P38143-1", "length": 162, "uniprot_id": "GPX2_YEAST", "protein_name": "Glutathione peroxidase-like peroxiredoxin 2", "refseq_ac": "NP_009803", "refseq_name": "glutathione peroxidase GPX2", "gene_name": "GPX2", "gene_names_uniprotkb": "GPX2; YBR1632", "gene_names_refseq": "AMI1; GPX2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" } ], "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": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" }, { "database": "iPTMnet", "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000448", "url": "https://www.yeastgenome.org/locus/S000000448", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "M", "down_seq": "TSFYDLECKDKKGESFKFDQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000448", "url": "https://www.yeastgenome.org/locus/S000000448" } ], "site_lbl": "Thr2" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "75", "end_pos": "75" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38143-1.4.4", "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": "P38143-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P38143-1", "length": 162, "uniprot_id": "GPX2_YEAST", "protein_name": "Glutathione peroxidase-like peroxiredoxin 2", "refseq_ac": "NP_009803", "refseq_name": "glutathione peroxidase GPX2", "gene_name": "GPX2", "gene_names_uniprotkb": "GPX2; YBR1632", "gene_names_refseq": "AMI1; GPX2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" } ], "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": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" }, { "database": "iPTMnet", "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" } ], "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": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000448", "url": "https://www.yeastgenome.org/locus/S000000448", "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": "MTT", "down_seq": "FYDLECKDKKGESFKFDQLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000448", "url": "https://www.yeastgenome.org/locus/S000000448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "75", "end_pos": "75" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38143-1.2.2", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38143-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "P38143-1", "length": 162, "uniprot_id": "GPX2_YEAST", "protein_name": "Glutathione peroxidase-like peroxiredoxin 2", "refseq_ac": "NP_009803", "refseq_name": "glutathione peroxidase GPX2", "gene_name": "GPX2", "gene_names_uniprotkb": "GPX2; YBR1632", "gene_names_refseq": "AMI1; GPX2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38143", "url": "https://www.uniprot.org/uniprotkb/P38143" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000448", "url": "https://www.yeastgenome.org/locus/S000000448", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143", "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": "DKGFVILGFPCNQFGKQEPG", "down_seq": "DEQITEFCQLNYGVTFPIMK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000448", "url": "https://www.yeastgenome.org/locus/S000000448" }, { "database": "iPTMnet", "id": "P38143", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38143" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser75" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "75", "end_pos": "75" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P38143-1.83.83", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.792.792", "start_pos": 792, "end_pos": 792, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "T", "start_aa": "T", "up_seq": "KENYSIDNYYKDVLNTGRSS", "down_seq": "PSHPRMPKPHVFHSHQLQPP", "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": "Thr792", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr792" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38144-1.780.780", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38144-1.781.781", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38144-1.791.791", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.825.825", "start_pos": 825, "end_pos": 825, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38144" }, { "database": "O-GlcNAc Atlas", "id": "P38144", "url": "https://oglcnac.org/atlas/detail/P38144" } ], "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": "P38144", "url": "https://oglcnac.org/atlas/detail/P38144", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "HSHQLQPPQLKVLYEKERMW", "down_seq": "AKKTGYVPTMDDVKAAYGDI", "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": "Thr825", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38144", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38144" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38144-1.831.831", "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": "P38144-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38144" }, { "database": "O-GlcNAc Atlas", "id": "P38144", "url": "https://oglcnac.org/atlas/detail/P38144" } ], "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": "P38144", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38144", "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": "P38144", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38144" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "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": "P38144-1.227.227", "start_pos": 227, "end_pos": 227, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the imitation switch subfamily of ATP-dependent chromatin-remodeling factors in Saccharomyces cerevisiae.", "journal": "Genes & development", "date": "1999-03-15", "authors": "Tsukiyama T, Palmer J, Landel C C, Shiloach J, Wu C", "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "reference": [ { "type": "PubMed", "id": "10090725", "url": "https://glygen.org/publication/PubMed/10090725" } ] } ], "crossref": [ { "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10090725", "url": "https://glygen.org/publication/PubMed/10090725", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "LVSLHKNKIAGILADEMGLG", "down_seq": "TLQTISFLGYLRYIEKIPGP", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Abolishes ATPase activity.", "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "PubMed", "id": "10090725", "url": "https://glygen.org/publication/PubMed/10090725" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "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": "P38144-1.1038.1038", "start_pos": 1038, "end_pos": 1038, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "VRDEIRDCPLFELDFYFRSR", "down_seq": "PVELARRGNTLLQCLEKEFN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1038" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "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": "P38144-1.1089.1089", "start_pos": 1089, "end_pos": 1089, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "DRMKKEDENGKRIREEFADQ", "down_seq": "ANEKENVDGVESKKAKIEDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1089" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P38144-1.1101.1101", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38144-1.1109.1109", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.1101.1101", "start_pos": 1101, "end_pos": 1101, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "IREEFADQTANEKENVDGVE", "down_seq": "KKAKIEDTSNVGTEQLVAEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1101" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38144-1.1089.1089", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38144-1.1109.1109", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38144-1.1110.1110", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38144-1.1114.1114", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.1109.1109", "start_pos": 1109, "end_pos": 1109, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "TANEKENVDGVESKKAKIED", "down_seq": "SNVGTEQLVAEKIPENETTH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1109" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38144-1.1089.1089", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38144-1.1101.1101", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38144-1.1110.1110", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38144-1.1114.1114", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38144-1.1127.1127", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38144-1.1128.1128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.1110.1110", "start_pos": 1110, "end_pos": 1110, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "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": "ANEKENVDGVESKKAKIEDT", "down_seq": "NVGTEQLVAEKIPENETTH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "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": "Ser1110" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38144-1.1101.1101", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38144-1.1109.1109", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38144-1.1114.1114", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38144-1.1127.1127", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38144-1.1128.1128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38144-1.1114.1114", "start_pos": 1114, "end_pos": 1114, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "ENVDGVESKKAKIEDTSNVG", "down_seq": "EQLVAEKIPENETTH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr1114" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38144-1.1101.1101", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38144-1.1109.1109", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38144-1.1110.1110", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38144-1.1127.1127", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38144-1.1128.1128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.1127.1127", "start_pos": 1127, "end_pos": 1127, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EDTSNVGTEQLVAEKIPENE", "down_seq": "TH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Thr1127" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38144-1.1109.1109", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38144-1.1110.1110", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38144-1.1114.1114", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38144-1.1128.1128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.1128.1128", "start_pos": 1128, "end_pos": 1128, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "DTSNVGTEQLVAEKIPENET", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1128" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38144-1.1109.1109", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38144-1.1110.1110", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38144-1.1114.1114", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38144-1.1127.1127", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.175.175", "start_pos": 175, "end_pos": 175, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "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": "DVRRRKTEHEEDAELLKEED", "down_seq": "DDDESIEFQFRESPAYVNGQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "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": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "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": "P38144-1.415.415", "start_pos": 415, "end_pos": 415, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "DKIVKQLHTVLQPFLLRRIK", "down_seq": "DVETSLLPKKELNLYVGMSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser415" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P38144-1.430.430", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.430.430", "start_pos": 430, "end_pos": 430, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "LRRIKSDVETSLLPKKELNL", "down_seq": "VGMSSMQKKWYKKILEKDLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" } ], "site_lbl": "Tyr430" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38144-1.415.415", "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": "P38144-1.455.455", "start_pos": 455, "end_pos": 455, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "SMQKKWYKKILEKDLDAVNG", "down_seq": "NGSKESKTRLLNIMMQLRKC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser455" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "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": "P38144-1.673.673", "start_pos": 673, "end_pos": 673, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "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": "QNRTSLKKKENKADSKDALL", "down_seq": "MIQHGAADVFKSGTSTGSAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser673" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P38144-1.685.685", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38144-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38144-1.688.688", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38144-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38144-1.691.691", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.685.685", "start_pos": 685, "end_pos": 685, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "ADSKDALLSMIQHGAADVFK", "down_seq": "GTSTGSAGTPEPGSGEKGDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser685" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38144-1.673.673", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38144-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38144-1.688.688", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38144-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38144-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38144-1.694.694", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38144-1.699.699", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.687.687", "start_pos": 687, "end_pos": 687, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "SKDALLSMIQHGAADVFKSG", "down_seq": "STGSAGTPEPGSGEKGDDID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr687" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38144-1.673.673", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38144-1.685.685", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38144-1.688.688", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38144-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38144-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38144-1.694.694", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38144-1.699.699", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.688.688", "start_pos": 688, "end_pos": 688, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "KDALLSMIQHGAADVFKSGT", "down_seq": "TGSAGTPEPGSGEKGDDIDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser688" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38144-1.673.673", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38144-1.685.685", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38144-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38144-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38144-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38144-1.694.694", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38144-1.699.699", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.689.689", "start_pos": 689, "end_pos": 689, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "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": "DALLSMIQHGAADVFKSGTS", "down_seq": "GSAGTPEPGSGEKGDDIDLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr689" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38144-1.673.673", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38144-1.685.685", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38144-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38144-1.688.688", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38144-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38144-1.694.694", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38144-1.699.699", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.691.691", "start_pos": 691, "end_pos": 691, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "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": "LLSMIQHGAADVFKSGTSTG", "down_seq": "AGTPEPGSGEKGDDIDLDEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "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": "Ser691" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38144-1.673.673", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38144-1.685.685", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38144-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38144-1.688.688", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38144-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38144-1.694.694", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38144-1.699.699", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38144-1.694.694", "start_pos": 694, "end_pos": 694, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144", "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "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": "MIQHGAADVFKSGTSTGSAG", "down_seq": "PEPGSGEKGDDIDLDELLLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "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": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "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": "Thr694" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38144-1.685.685", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38144-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38144-1.688.688", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38144-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38144-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38144-1.699.699", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38144-1.699.699", "start_pos": 699, "end_pos": 699, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "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": "AADVFKSGTSTGSAGTPEPG", "down_seq": "GEKGDDIDLDELLLKSENKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "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": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser699" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38144-1.685.685", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38144-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38144-1.688.688", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38144-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38144-1.691.691", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38144-1.694.694", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38144-1.721.721", "start_pos": 721, "end_pos": 721, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "EKGDDIDLDELLLKSENKTK", "down_seq": "LNAKYETLGLDDLQKFNQDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser721" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "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": "P38144-1.760.760", "start_pos": 760, "end_pos": 760, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "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": "DSAYEWNGQDFKKKIQRDII", "down_seq": "PLLLNPTKRERKENYSIDNY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser760" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "P38144-1.780.780", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.780.780", "start_pos": 780, "end_pos": 780, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "SPLLLNPTKRERKENYSIDN", "down_seq": "YKDVLNTGRSSTPSHPRMPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr780" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38144-1.760.760", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38144-1.781.781", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38144-1.791.791", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38144-1.792.792", "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": "P38144-1.781.781", "start_pos": 781, "end_pos": 781, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "PLLLNPTKRERKENYSIDNY", "down_seq": "KDVLNTGRSSTPSHPRMPKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr781" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38144-1.780.780", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38144-1.791.791", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38144-1.792.792", "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": "P38144-1.791.791", "start_pos": 791, "end_pos": 791, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RKENYSIDNYYKDVLNTGRS", "down_seq": "TPSHPRMPKPHVFHSHQLQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser791" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38144-1.780.780", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38144-1.781.781", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38144-1.792.792", "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": "P38144-1.831.831", "start_pos": 831, "end_pos": 831, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] } ], "crossref": [ { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "PPQLKVLYEKERMWTAKKTG", "down_seq": "VPTMDDVKAAYGDISDEEEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ], "site_lbl": "Tyr831" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38144-1.825.825", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38144-1.846.846", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38144-1.846.846", "start_pos": 846, "end_pos": 846, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "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": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "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": "AKKTGYVPTMDDVKAAYGDI", "down_seq": "DEEEKKQKLELLKLSVNNSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "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": "Ser846" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38144-1.831.831", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38144-1.865.865", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38144-1.865.865", "start_pos": 865, "end_pos": 865, "uniprot_canonical_ac": "P38144-1", "length": 1129, "uniprot_id": "ISW1_YEAST", "protein_name": "ISWI chromatin-remodeling complex ATPase ISW1", "refseq_ac": "NP_009804", "refseq_name": "chromatin-remodeling ATPase ISW1", "gene_name": "ISW1", "gene_names_uniprotkb": "ISW1; YBR1633", "gene_names_refseq": "ISW1; SGN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38144", "url": "https://www.uniprot.org/uniprotkb/P38144" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144", "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": "ISDEEEKKQKLELLKLSVNN", "down_seq": "QPLTEEEEKMKADWESEGFT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000449", "url": "https://www.yeastgenome.org/locus/S000000449" }, { "database": "iPTMnet", "id": "P38144", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38144" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser865" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "792", "end_pos": "792" }, { "start_pos": "825", "end_pos": "825" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "227", "end_pos": "227" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1038", "end_pos": "1038" }, { "start_pos": "1089", "end_pos": "1089" }, { "start_pos": "1101", "end_pos": "1101" }, { "start_pos": "1109", "end_pos": "1109" }, { "start_pos": "1110", "end_pos": "1110" }, { "start_pos": "1114", "end_pos": "1114" }, { "start_pos": "1127", "end_pos": "1127" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "688", "end_pos": "688" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "694", "end_pos": "694" }, { "start_pos": "699", "end_pos": "699" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "781", "end_pos": "781" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "831", "end_pos": "831" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38144-1.846.846", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38146-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "P38146-1", "length": 199, "uniprot_id": "YPT10_YEAST", "protein_name": "GTP-binding protein YPT10", "refseq_ac": "NP_009823", "refseq_name": "Rab family GTPase YPT10", "gene_name": "YPT10", "gene_names_uniprotkb": "YPT10; YBR1733", "gene_names_refseq": "YPT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38146", "url": "https://www.uniprot.org/uniprotkb/P38146" } ], "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": "P38146", "url": "https://www.uniprot.org/uniprotkb/P38146" }, { "database": "iPTMnet", "id": "P38146", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38146" } ], "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": "P38146", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38146" } ], "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": "P38146", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38146" } ], "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": "P38146", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38146" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000468", "url": "https://www.yeastgenome.org/locus/S000000468", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38146", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38146", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FDTLNKIIISLVPESQFKTL", "down_seq": "KNNEQGNILEINKKKSGSGC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000468", "url": "https://www.yeastgenome.org/locus/S000000468" }, { "database": "iPTMnet", "id": "P38146", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38146" }, { "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": "Ser177" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "177", "end_pos": "177" } ] } ], "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": "P38149-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "P38149-1", "length": 878, "uniprot_id": "DUG2_YEAST", "protein_name": "Probable di- and tripeptidase DUG2", "refseq_ac": "NP_009840", "refseq_name": "glutamine amidotransferase subunit DUG2", "gene_name": "DUG2", "gene_names_uniprotkb": "DUG2; YBR2018", "gene_names_refseq": "DUG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38149", "url": "https://www.uniprot.org/uniprotkb/P38149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000485", "url": "https://www.yeastgenome.org/locus/S000000485", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38149", "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": "PHRRYDKFFDSLGPTGYSSN", "down_seq": "LSQTSLTSLQENCGAAIIEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000485", "url": "https://www.yeastgenome.org/locus/S000000485" }, { "database": "iPTMnet", "id": "P38149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser192" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "192", "end_pos": "192" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38149-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38149-1.200.200", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38149-1.197.197", "start_pos": 197, "end_pos": 197, "uniprot_canonical_ac": "P38149-1", "length": 878, "uniprot_id": "DUG2_YEAST", "protein_name": "Probable di- and tripeptidase DUG2", "refseq_ac": "NP_009840", "refseq_name": "glutamine amidotransferase subunit DUG2", "gene_name": "DUG2", "gene_names_uniprotkb": "DUG2; YBR2018", "gene_names_refseq": "DUG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38149", "url": "https://www.uniprot.org/uniprotkb/P38149" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000485", "url": "https://www.yeastgenome.org/locus/S000000485", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38149", "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": "DKFFDSLGPTGYSSNSLSQT", "down_seq": "LTSLQENCGAAIIEVPSENI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000485", "url": "https://www.yeastgenome.org/locus/S000000485" }, { "database": "iPTMnet", "id": "P38149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38149" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser197" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "192", "end_pos": "192" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38149-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38149-1.200.200", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38149-1.200.200", "start_pos": 200, "end_pos": 200, "uniprot_canonical_ac": "P38149-1", "length": 878, "uniprot_id": "DUG2_YEAST", "protein_name": "Probable di- and tripeptidase DUG2", "refseq_ac": "NP_009840", "refseq_name": "glutamine amidotransferase subunit DUG2", "gene_name": "DUG2", "gene_names_uniprotkb": "DUG2; YBR2018", "gene_names_refseq": "DUG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38149", "url": "https://www.uniprot.org/uniprotkb/P38149" } ], "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": "P38149", "url": "https://www.uniprot.org/uniprotkb/P38149" }, { "database": "iPTMnet", "id": "P38149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38149" } ], "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": "P38149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38149" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38149", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000485", "url": "https://www.yeastgenome.org/locus/S000000485", "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": "FDSLGPTGYSSNSLSQTSLT", "down_seq": "LQENCGAAIIEVPSENIIKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38149", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38149" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000485", "url": "https://www.yeastgenome.org/locus/S000000485" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser200" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "192", "end_pos": "192" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38149-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38149-1.197.197", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38153-1.153.153", "start_pos": 153, "end_pos": 153, "uniprot_canonical_ac": "P38153-1", "length": 483, "uniprot_id": "AP3M_YEAST", "protein_name": "AP-3 complex subunit mu", "refseq_ac": "NP_009847", "refseq_name": "Apm3p", "gene_name": "APM3", "gene_names_uniprotkb": "APM3; YBR2035; YKS6", "gene_names_refseq": "APM3; YKS6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38153", "url": "https://www.uniprot.org/uniprotkb/P38153" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38153", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38153" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000492", "url": "https://www.yeastgenome.org/locus/S000000492", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38153", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38153", "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": "EPNVSDMLYVNKIKEAVPER", "down_seq": "DLSKFISSTAHNLQQAVQLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000492", "url": "https://www.yeastgenome.org/locus/S000000492" }, { "database": "iPTMnet", "id": "P38153", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38153" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser153" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "459", "end_pos": "459" } ] } ], "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": "P38153-1.189.189", "start_pos": 189, "end_pos": 189, "uniprot_canonical_ac": "P38153-1", "length": 483, "uniprot_id": "AP3M_YEAST", "protein_name": "AP-3 complex subunit mu", "refseq_ac": "NP_009847", "refseq_name": "Apm3p", "gene_name": "APM3", "gene_names_uniprotkb": "APM3; YBR2035; YKS6", "gene_names_refseq": "APM3; YKS6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38153", "url": "https://www.uniprot.org/uniprotkb/P38153" } ], "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": "P38153", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38153" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38153", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38153", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000492", "url": "https://www.yeastgenome.org/locus/S000000492", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AVQLPQQRQQQLQQNQISRG", "down_seq": "NSLIENEEIVPWRTSRASKH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38153", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38153" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000492", "url": "https://www.yeastgenome.org/locus/S000000492" } ], "site_lbl": "Ser189" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "459", "end_pos": "459" } ] } ], "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": "P38153-1.459.459", "start_pos": 459, "end_pos": 459, "uniprot_canonical_ac": "P38153-1", "length": 483, "uniprot_id": "AP3M_YEAST", "protein_name": "AP-3 complex subunit mu", "refseq_ac": "NP_009847", "refseq_name": "Apm3p", "gene_name": "APM3", "gene_names_uniprotkb": "APM3; YBR2035; YKS6", "gene_names_refseq": "APM3; YKS6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38153", "url": "https://www.uniprot.org/uniprotkb/P38153" } ], "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": "P38153", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38153" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38153", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38153", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000492", "url": "https://www.yeastgenome.org/locus/S000000492", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "YIGQSASGIYVEAIDIVSGL", "down_seq": "IGKNTKLYKGAKYKTQTGNF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38153", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38153" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000492", "url": "https://www.yeastgenome.org/locus/S000000492" } ], "site_lbl": "Thr459" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "459", "end_pos": "459" } ] } ], "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": "P38165-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "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": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ASTIYEEAESQSSYLDDMFR", "down_seq": "SQGGRPVTQNSISSIGQGPL", "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": "Thr112", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38165", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38165" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38165-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.113.113", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38165-1.120.120", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38165-1.126.126", "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": "P38165-1.113.113", "start_pos": 113, "end_pos": 113, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "STIYEEAESQSSYLDDMFRT", "down_seq": "QGGRPVTQNSISSIGQGPLR", "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": "Ser113", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38165", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38165" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser113" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38165-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.112.112", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38165-1.120.120", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38165-1.126.126", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.120.120", "start_pos": 120, "end_pos": 120, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ESQSSYLDDMFRTSQGGRPV", "down_seq": "QNSISSIGQGPLRSSYSMAY", "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": "Thr120", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38165", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38165" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ], "site_lbl": "Thr120" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38165-1.112.112", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38165-1.113.113", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38165-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38165-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38165-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38165-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38165-1.137.137", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38165-1.140.140", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.123.123", "start_pos": 123, "end_pos": 123, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165", "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "SSYLDDMFRTSQGGRPVTQN", "down_seq": "ISSIGQGPLRSSYSMAYDSP", "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": "P38165", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38165" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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": "Ser123" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38165-1.112.112", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.113.113", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.120.120", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38165-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38165-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38165-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38165-1.137.137", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38165-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38165-1.142.142", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "YLDDMFRTSQGGRPVTQNSI", "down_seq": "SIGQGPLRSSYSMAYDSPVD", "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": "Ser125", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38165", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38165" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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": "Ser125" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38165-1.112.112", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38165-1.113.113", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38165-1.120.120", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38165-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38165-1.137.137", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38165-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38165-1.142.142", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.126.126", "start_pos": 126, "end_pos": 126, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "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": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LDDMFRTSQGGRPVTQNSIS", "down_seq": "IGQGPLRSSYSMAYDSPVDR", "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": "Ser126", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38165", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38165" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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" } ], "site_lbl": "Ser126" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38165-1.112.112", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38165-1.113.113", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38165-1.120.120", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38165-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38165-1.137.137", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38165-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38165-1.142.142", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.134.134", "start_pos": 134, "end_pos": 134, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "QGGRPVTQNSISSIGQGPLR", "down_seq": "SYSMAYDSPVDRAMNTPLQQ", "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": "Ser134", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38165", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38165" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser134" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38165-1.120.120", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38165-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38165-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.137.137", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38165-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38165-1.142.142", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38165-1.150.150", "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": "P38165-1.135.135", "start_pos": 135, "end_pos": 135, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "GGRPVTQNSISSIGQGPLRS", "down_seq": "YSMAYDSPVDRAMNTPLQQQ", "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": "Ser135", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38165", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38165" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser135" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38165-1.120.120", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38165-1.137.137", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38165-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38165-1.142.142", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38165-1.150.150", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.137.137", "start_pos": 137, "end_pos": 137, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "RPVTQNSISSIGQGPLRSSY", "down_seq": "MAYDSPVDRAMNTPLQQQEG", "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": "Ser137", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38165", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38165" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser137" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38165-1.120.120", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38165-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38165-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38165-1.142.142", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38165-1.150.150", "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": "P38165-1.142.142", "start_pos": 142, "end_pos": 142, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "NSISSIGQGPLRSSYSMAYD", "down_seq": "PVDRAMNTPLQQQEGLKAEL", "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": "Ser142", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38165", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38165" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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": "Ser142" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38165-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38165-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38165-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38165-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38165-1.137.137", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38165-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38165-1.150.150", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" }, { "database": "O-GlcNAc Atlas", "id": "P38165", "url": "https://oglcnac.org/atlas/detail/P38165" } ], "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": "P38165", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165", "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": "P38165", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38165" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "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": "P38165-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "Y", "start_aa": "Y", "up_seq": "GRPVTQNSISSIGQGPLRSS", "down_seq": "SMAYDSPVDRAMNTPLQQQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr136" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38165-1.120.120", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38165-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.137.137", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38165-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38165-1.142.142", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38165-1.150.150", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.140.140", "start_pos": 140, "end_pos": 140, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "TQNSISSIGQGPLRSSYSMA", "down_seq": "DSPVDRAMNTPLQQQEGLKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr140" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38165-1.120.120", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38165-1.123.123", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38165-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38165-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38165-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38165-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38165-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.137.137", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38165-1.142.142", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.150.150", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.150.150", "start_pos": 150, "end_pos": 150, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "T", "start_aa": "T", "up_seq": "GPLRSSYSMAYDSPVDRAMN", "down_seq": "PLQQQEGLKAELPHDFLFQH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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": "Thr150" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38165-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38165-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38165-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38165-1.137.137", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38165-1.142.142", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.197.197", "start_pos": 197, "end_pos": 197, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Hog1 SAPK controls the Rtg1/Rtg3 transcriptional complex activity by multiple regulatory mechanisms.", "journal": "Molecular biology of the cell", "date": "2012-11", "authors": "Ruiz-Roig Cl\u00e0udia, Noriega N\u00faria, Duch Alba, Posas Francesc, de Nadal Eul\u00e0lia", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "YNLTDDLSSSLSSSINSDMM", "down_seq": "PNTYSSSFSYNPQSLGPASV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768" } ], "site_lbl": "Thr197" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "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": "P38165-1.221.221", "start_pos": 221, "end_pos": 221, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "YSSSFSYNPQSLGPASVSST", "down_seq": "SPKVRSPSSSFRAGSFLSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" } ], "site_lbl": "Tyr221" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38165-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38165-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38165-1.241.241", "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": "P38165-1.222.222", "start_pos": 222, "end_pos": 222, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "The Hog1 SAPK controls the Rtg1/Rtg3 transcriptional complex activity by multiple regulatory mechanisms.", "journal": "Molecular biology of the cell", "date": "2012-11", "authors": "Ruiz-Roig Cl\u00e0udia, Noriega N\u00faria, Duch Alba, Posas Francesc, de Nadal Eul\u00e0lia", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSSFSYNPQSLGPASVSSTY", "down_seq": "PKVRSPSSSFRAGSFLSSSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser222" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38165-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38165-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38165-1.241.241", "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": "P38165-1.227.227", "start_pos": 227, "end_pos": 227, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "The Hog1 SAPK controls the Rtg1/Rtg3 transcriptional complex activity by multiple regulatory mechanisms.", "journal": "Molecular biology of the cell", "date": "2012-11", "authors": "Ruiz-Roig Cl\u00e0udia, Noriega N\u00faria, Duch Alba, Posas Francesc, de Nadal Eul\u00e0lia", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768", "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": "YNPQSLGPASVSSTYSPKVR", "down_seq": "PSSSFRAGSFLSSSFRHGSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768" }, { "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": "Ser227" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38165-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38165-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38165-1.246.246", "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": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.229.229", "start_pos": 229, "end_pos": 229, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "PQSLGPASVSSTYSPKVRSP", "down_seq": "SSFRAGSFLSSSFRHGSINT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser229" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38165-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38165-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38165-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38165-1.249.249", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.230.230", "start_pos": 230, "end_pos": 230, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "QSLGPASVSSTYSPKVRSPS", "down_seq": "SFRAGSFLSSSFRHGSINTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser230" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38165-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38165-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38165-1.249.249", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.231.231", "start_pos": 231, "end_pos": 231, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "SLGPASVSSTYSPKVRSPSS", "down_seq": "FRAGSFLSSSFRHGSINTPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "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": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser231" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38165-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38165-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38165-1.249.249", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.236.236", "start_pos": 236, "end_pos": 236, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165", "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "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": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "SVSSTYSPKVRSPSSSFRAG", "down_seq": "FLSSSFRHGSINTPRTRHTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "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": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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": "Ser236" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38165-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38165-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38165-1.256.256", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.239.239", "start_pos": 239, "end_pos": 239, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "STYSPKVRSPSSSFRAGSFL", "down_seq": "SSFRHGSINTPRTRHTSISS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38165-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38165-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38165-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38165-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38165-1.259.259", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.240.240", "start_pos": 240, "end_pos": 240, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "TYSPKVRSPSSSFRAGSFLS", "down_seq": "SFRHGSINTPRTRHTSISSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser240" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38165-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38165-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38165-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38165-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38165-1.259.259", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.241.241", "start_pos": 241, "end_pos": 241, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "YSPKVRSPSSSFRAGSFLSS", "down_seq": "FRHGSINTPRTRHTSISSNM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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": "Ser241" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38165-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38165-1.222.222", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38165-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38165-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38165-1.259.259", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.246.246", "start_pos": 246, "end_pos": 246, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "RSPSSSFRAGSFLSSSFRHG", "down_seq": "INTPRTRHTSISSNMTENIG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "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": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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": "Ser246" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38165-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38165-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38165-1.262.262", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.249.249", "start_pos": 249, "end_pos": 249, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "The Hog1 SAPK controls the Rtg1/Rtg3 transcriptional complex activity by multiple regulatory mechanisms.", "journal": "Molecular biology of the cell", "date": "2012-11", "authors": "Ruiz-Roig Cl\u00e0udia, Noriega N\u00faria, Duch Alba, Posas Francesc, de Nadal Eul\u00e0lia", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768", "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": "SSSFRAGSFLSSSFRHGSIN", "down_seq": "PRTRHTSISSNMTENIGPGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768" }, { "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": "Thr249" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38165-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38165-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38165-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38165-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38165-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38165-1.269.269", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38165-1.255.255", "start_pos": 255, "end_pos": 255, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GSFLSSSFRHGSINTPRTRH", "down_seq": "SISSNMTENIGPGSVPKILG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" } ], "site_lbl": "Thr255" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38165-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38165-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38165-1.269.269", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38165-1.256.256", "start_pos": 256, "end_pos": 256, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "SFLSSSFRHGSINTPRTRHT", "down_seq": "ISSNMTENIGPGSVPKILGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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": "Ser256" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38165-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38165-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38165-1.269.269", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38165-1.258.258", "start_pos": 258, "end_pos": 258, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "LSSSFRHGSINTPRTRHTSI", "down_seq": "SNMTENIGPGSVPKILGGLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser258" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38165-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38165-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38165-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38165-1.278.278", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "SSSFRHGSINTPRTRHTSIS", "down_seq": "NMTENIGPGSVPKILGGLTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser259" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38165-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38165-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38165-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38165-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38165-1.279.279", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.262.262", "start_pos": 262, "end_pos": 262, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "FRHGSINTPRTRHTSISSNM", "down_seq": "ENIGPGSVPKILGGLTSDEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr262" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38165-1.246.246", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38165-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38165-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38165-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38165-1.279.279", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.269.269", "start_pos": 269, "end_pos": 269, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "TPRTRHTSISSNMTENIGPG", "down_seq": "VPKILGGLTSDEKLRRKREF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "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": "Ser269" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38165-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38165-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38165-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38165-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38165-1.279.279", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.278.278", "start_pos": 278, "end_pos": 278, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "SSNMTENIGPGSVPKILGGL", "down_seq": "SDEKLRRKREFHNAVERRRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr278" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38165-1.258.258", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38165-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38165-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38165-1.279.279", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.279.279", "start_pos": 279, "end_pos": 279, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "SNMTENIGPGSVPKILGGLT", "down_seq": "DEKLRRKREFHNAVERRRRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "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": "Ser279" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38165-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38165-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38165-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38165-1.278.278", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.370.370", "start_pos": 370, "end_pos": 370, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "IQARKKKALLAKIKELEEKK", "down_seq": "SVAALSPFTNNHHASSGQNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser370" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38165-1.371.371", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38165-1.376.376", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.371.371", "start_pos": 371, "end_pos": 371, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "QARKKKALLAKIKELEEKKS", "down_seq": "VAALSPFTNNHHASSGQNNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser371" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38165-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38165-1.376.376", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.376.376", "start_pos": 376, "end_pos": 376, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "The Hog1 SAPK controls the Rtg1/Rtg3 transcriptional complex activity by multiple regulatory mechanisms.", "journal": "Molecular biology of the cell", "date": "2012-11", "authors": "Ruiz-Roig Cl\u00e0udia, Noriega N\u00faria, Duch Alba, Posas Francesc, de Nadal Eul\u00e0lia", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768", "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": "KALLAKIKELEEKKSSVAAL", "down_seq": "PFTNNHHASSGQNNSENSEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "22956768", "url": "https://glygen.org/publication/PubMed/22956768" }, { "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": "Ser376" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38165-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38165-1.371.371", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38165-1.394.394", "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": "P38165-1.394.394", "start_pos": 394, "end_pos": 394, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "ALSPFTNNHHASSGQNNSEN", "down_seq": "EERIIDIRSVPNALMNEQNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser394" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38165-1.376.376", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.455.455", "start_pos": 455, "end_pos": 455, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AGTMESHPHTNIHEELKEFL", "down_seq": "GDLIEAEDNAKLMFGDDNSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" } ], "site_lbl": "Ser455" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "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": "P38165-1.479.479", "start_pos": 479, "end_pos": 479, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "IEAEDNAKLMFGDDNSNPAD", "down_seq": "LLEFGSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr479" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38165-1.485.485", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.485.485", "start_pos": 485, "end_pos": 485, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "AKLMFGDDNSNPADYLLEFG", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser485" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38165-1.479.479", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "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": "PTPHHNDDYKIHGSAYPGGE", "down_seq": "PAQQHEKLSYINTHNSNDNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr56" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P38165-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38165-1.72.72", "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": "P38165-1.69.69", "start_pos": 69, "end_pos": 69, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SAYPGGETPAQQHEKLSYIN", "down_seq": "HNSNDNNNLMGSQARSNSQT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr69" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38165-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38165-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38165-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38165-1.87.87", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PGGETPAQQHEKLSYINTHN", "down_seq": "NDNNNLMGSQARSNSQTPTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser72" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38165-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38165-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38165-1.87.87", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.81.81", "start_pos": 81, "end_pos": 81, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HEKLSYINTHNSNDNNNLMG", "down_seq": "QARSNSQTPTASTIYEEAES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" } ], "site_lbl": "Ser81" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38165-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38165-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38165-1.96.96", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.87.87", "start_pos": 87, "end_pos": 87, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "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": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "INTHNSNDNNNLMGSQARSN", "down_seq": "QTPTASTIYEEAESQSSYLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser87" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38165-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38165-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38165-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38165-1.96.96", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38165-1.96.96", "start_pos": 96, "end_pos": 96, "uniprot_canonical_ac": "P38165-1", "length": 486, "uniprot_id": "RTG3_YEAST", "protein_name": "Retrograde regulation protein 3", "refseq_ac": "NP_009447", "refseq_name": "Rtg3p", "gene_name": "RTG3", "gene_names_uniprotkb": "RTG3; YBL0810", "gene_names_refseq": "RTG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38165", "url": "https://www.uniprot.org/uniprotkb/P38165" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165", "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": "NNLMGSQARSNSQTPTASTI", "down_seq": "EEAESQSSYLDDMFRTSQGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000199", "url": "https://www.yeastgenome.org/locus/S000000199" }, { "database": "iPTMnet", "id": "P38165", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38165" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr96" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "142", "end_pos": "142" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "113", "end_pos": "113" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "123", "end_pos": "123" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "258", "end_pos": "258" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38165-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38165-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38165-1.112.112", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38165-1.113.113", "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": "P38193-1.165.165", "start_pos": 165, "end_pos": 165, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "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": "EKQEDDKEKDINFIKNQEDV", "down_seq": "LMKIPWMTENNTRELAPFIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser165" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "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": "P38193-1.189.189", "start_pos": 189, "end_pos": 189, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IPWMTENNTRELAPFIREID", "down_seq": "IMSVNLGYDDEDEEEGFFDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" } ], "site_lbl": "Ser189" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38193-1.192.192", "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": "P38193-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MTENNTRELAPFIREIDSIM", "down_seq": "VNLGYDDEDEEEGFFDGDED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" } ], "site_lbl": "Ser192" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38193-1.189.189", "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": "P38193-1.263.263", "start_pos": 263, "end_pos": 263, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NDDNSDNKGQNCQSDVTKNN", "down_seq": "DDEDDDDNDDDYREDGADED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" } ], "site_lbl": "Ser263" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "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": "P38193-1.292.292", "start_pos": 292, "end_pos": 292, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDDYREDGADEDDEDDDHMG", "down_seq": "TDDDEDDDEDRQAGESTKVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser292" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38193-1.293.293", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.293.293", "start_pos": 293, "end_pos": 293, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DDYREDGADEDDEDDDHMGS", "down_seq": "DDDEDDDEDRQAGESTKVQN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr293" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38193-1.292.292", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.320.320", "start_pos": 320, "end_pos": 320, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Systematic identification of cell cycle-dependent yeast nucleocytoplasmic shuttling proteins by prediction of composite motifs.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2009-06-23", "authors": "Kosugi Shunichi, Hasebe Masako, Tomita Masaru, Yanagawa Hiroshi", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "19520826", "url": "https://glygen.org/publication/PubMed/19520826" } ] }, { "title": "A synthetic biology approach reveals diverse and dynamic CDK response profiles via multisite phosphorylation of NLS-NES modules.", "journal": "Science advances", "date": "2022-08-19", "authors": "Faustova Ilona, \u00d6rd Mihkel, Kiselev Viacheslav, Fedorenko Dmytro, Borovko Irina, Macs Dags, P\u00e4\u00e4bo Kaur, L\u00f5oke Marko, Loog Mart", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ] } ], "crossref": [ { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19520826", "url": "https://glygen.org/publication/PubMed/19520826", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DEDRQAGESTKVQNFDKKNE", "down_seq": "PRKRKPTDLDNFEYDESPSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "19520826", "url": "https://glygen.org/publication/PubMed/19520826" }, { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ], "site_lbl": "Thr320" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P38193-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38193-1.337.337", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38193-1.339.339", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.334.334", "start_pos": 334, "end_pos": 334, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "FDKKNETPRKRKPTDLDNFE", "down_seq": "DESPSFTNMDLTTPKKYKHT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" } ], "site_lbl": "Tyr334" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38193-1.320.320", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38193-1.337.337", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38193-1.339.339", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38193-1.347.347", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.337.337", "start_pos": 337, "end_pos": 337, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A synthetic biology approach reveals diverse and dynamic CDK response profiles via multisite phosphorylation of NLS-NES modules.", "journal": "Science advances", "date": "2022-08-19", "authors": "Faustova Ilona, \u00d6rd Mihkel, Kiselev Viacheslav, Fedorenko Dmytro, Borovko Irina, Macs Dags, P\u00e4\u00e4bo Kaur, L\u00f5oke Marko, Loog Mart", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KNETPRKRKPTDLDNFEYDE", "down_seq": "PSFTNMDLTTPKKYKHTATG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ], "site_lbl": "Ser337" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38193-1.320.320", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38193-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38193-1.339.339", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38193-1.347.347", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.339.339", "start_pos": 339, "end_pos": 339, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "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": "ETPRKRKPTDLDNFEYDESP", "down_seq": "FTNMDLTTPKKYKHTATGRF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser339" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38193-1.320.320", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38193-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38193-1.337.337", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38193-1.347.347", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.347.347", "start_pos": 347, "end_pos": 347, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "A synthetic biology approach reveals diverse and dynamic CDK response profiles via multisite phosphorylation of NLS-NES modules.", "journal": "Science advances", "date": "2022-08-19", "authors": "Faustova Ilona, \u00d6rd Mihkel, Kiselev Viacheslav, Fedorenko Dmytro, Borovko Irina, Macs Dags, P\u00e4\u00e4bo Kaur, L\u00f5oke Marko, Loog Mart", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ] } ], "crossref": [ { "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "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": "35977012", "url": "https://glygen.org/publication/PubMed/35977012", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TDLDNFEYDESPSFTNMDLT", "down_seq": "PKKYKHTATGRFSIIESPSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "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": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ], "site_lbl": "Thr347" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38193-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38193-1.337.337", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38193-1.339.339", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38193-1.360.360", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38193-1.364.364", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.360.360", "start_pos": 360, "end_pos": 360, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "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": "FTNMDLTTPKKYKHTATGRF", "down_seq": "IIESPSSSLLNAMDGSNEIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser360" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38193-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38193-1.364.364", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.364.364", "start_pos": 364, "end_pos": 364, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "A synthetic biology approach reveals diverse and dynamic CDK response profiles via multisite phosphorylation of NLS-NES modules.", "journal": "Science advances", "date": "2022-08-19", "authors": "Faustova Ilona, \u00d6rd Mihkel, Kiselev Viacheslav, Fedorenko Dmytro, Borovko Irina, Macs Dags, P\u00e4\u00e4bo Kaur, L\u00f5oke Marko, Loog Mart", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DLTTPKKYKHTATGRFSIIE", "down_seq": "PSSSLLNAMDGSNEISSSQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ], "site_lbl": "Ser364" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38193-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38193-1.360.360", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38193-1.381.381", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38193-1.382.382", "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": "P38193-1.381.381", "start_pos": 381, "end_pos": 381, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "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": "IIESPSSSLLNAMDGSNEIS", "down_seq": "SQEEEKEDAHENHEGRSEGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser381" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38193-1.364.364", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38193-1.382.382", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.382.382", "start_pos": 382, "end_pos": 382, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "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": "IESPSSSLLNAMDGSNEISS", "down_seq": "QEEEKEDAHENHEGRSEGLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser382" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38193-1.364.364", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38193-1.381.381", "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": "P38193-1.409.409", "start_pos": 409, "end_pos": 409, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "A synthetic biology approach reveals diverse and dynamic CDK response profiles via multisite phosphorylation of NLS-NES modules.", "journal": "Science advances", "date": "2022-08-19", "authors": "Faustova Ilona, \u00d6rd Mihkel, Kiselev Viacheslav, Fedorenko Dmytro, Borovko Irina, Macs Dags, P\u00e4\u00e4bo Kaur, L\u00f5oke Marko, Loog Mart", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "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" ] }, { "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DAHENHEGRSEGLLPGDELV", "down_seq": "PSMSSSQEDKMVAIAGITYR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ], "site_lbl": "Ser409" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38193-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38193-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38193-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38193-1.415.415", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.411.411", "start_pos": 411, "end_pos": 411, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "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": "HENHEGRSEGLLPGDELVSP", "down_seq": "MSSSQEDKMVAIAGITYREN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser411" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38193-1.409.409", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38193-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38193-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38193-1.415.415", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.413.413", "start_pos": 413, "end_pos": 413, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "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": "NHEGRSEGLLPGDELVSPSM", "down_seq": "SSQEDKMVAIAGITYRENIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser413" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38193-1.409.409", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38193-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38193-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38193-1.415.415", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38193-1.433.433", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.414.414", "start_pos": 414, "end_pos": 414, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "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": "HEGRSEGLLPGDELVSPSMS", "down_seq": "SQEDKMVAIAGITYRENISS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser414" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38193-1.409.409", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38193-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38193-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38193-1.415.415", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38193-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38193-1.434.434", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.415.415", "start_pos": 415, "end_pos": 415, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "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": "EGRSEGLLPGDELVSPSMSS", "down_seq": "QEDKMVAIAGITYRENISSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P38110-1", "kinase_gene_name": "TEL1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ], "site_lbl": "Ser415" }, { "kinase_uniprot_canonical_ac": "P38111-1", "kinase_gene_name": "MEC1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ], "site_lbl": "Ser415" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser415" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38193-1.409.409", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38193-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38193-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38193-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38193-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38193-1.434.434", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_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": "P38193-1.433.433", "start_pos": 433, "end_pos": 433, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "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": "SSSQEDKMVAIAGITYRENI", "down_seq": "SPLGKKSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser433" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38193-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38193-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38193-1.415.415", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38193-1.434.434", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38193-1.434.434", "start_pos": 434, "end_pos": 434, "uniprot_canonical_ac": "P38193-1", "length": 441, "uniprot_id": "PP4R2_YEAST", "protein_name": "Serine/threonine-protein phosphatase 4 regulatory subunit 2", "refseq_ac": "NP_009507", "refseq_name": "Psy4p", "gene_name": "PSY4", "gene_names_uniprotkb": "PSY4; HTP3; YBL0402", "gene_names_refseq": "HSM6; PSY4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "https://www.uniprot.org/uniprotkb/P38193" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "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": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "A synthetic biology approach reveals diverse and dynamic CDK response profiles via multisite phosphorylation of NLS-NES modules.", "journal": "Science advances", "date": "2022-08-19", "authors": "Faustova Ilona, \u00d6rd Mihkel, Kiselev Viacheslav, Fedorenko Dmytro, Borovko Irina, Macs Dags, P\u00e4\u00e4bo Kaur, L\u00f5oke Marko, Loog Mart", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" } ], "reference": [ { "type": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ] } ], "crossref": [ { "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSQEDKMVAIAGITYRENIS", "down_seq": "PLGKKSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser434" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser434" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000142", "url": "https://www.yeastgenome.org/locus/S000000142" }, { "database": "iPTMnet", "id": "P38193", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38193" }, { "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" }, { "database": "PubMed", "id": "35977012", "url": "https://glygen.org/publication/PubMed/35977012" } ], "site_lbl": "Ser434" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "165", "end_pos": "165" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "382", "end_pos": "382" }, { "start_pos": "409", "end_pos": "409" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38193-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38193-1.415.415", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38193-1.433.433", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 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": "P38210-1.142.142", "start_pos": 142, "end_pos": 142, "uniprot_canonical_ac": "P38210-1", "length": 180, "uniprot_id": "LDB7_YEAST", "protein_name": "Chromatin structure-remodeling complex protein RSC14", "refseq_ac": "NP_009547", "refseq_name": "Ldb7p", "gene_name": "LDB7", "gene_names_uniprotkb": "LDB7; RSC14; YBL0322", "gene_names_refseq": "LDB7; RSC14", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38210", "url": "https://www.uniprot.org/uniprotkb/P38210" } ], "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": "P38210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38210" } ], "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": "P38210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38210" } ], "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": "P38210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38210" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000102", "url": "https://www.yeastgenome.org/locus/S000000102", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38210", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HDVFLAGAGQLSLPFQSHIE", "down_seq": "PRNSEAKRKRKVIICKRCQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000102", "url": "https://www.yeastgenome.org/locus/S000000102" }, { "database": "iPTMnet", "id": "P38210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38210" }, { "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": "Ser142" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "142", "end_pos": "142" }, { "start_pos": "48", "end_pos": "48" } ] } ], "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": "P38210-1.48.48", "start_pos": 48, "end_pos": 48, "uniprot_canonical_ac": "P38210-1", "length": 180, "uniprot_id": "LDB7_YEAST", "protein_name": "Chromatin structure-remodeling complex protein RSC14", "refseq_ac": "NP_009547", "refseq_name": "Ldb7p", "gene_name": "LDB7", "gene_names_uniprotkb": "LDB7; RSC14; YBL0322", "gene_names_refseq": "LDB7; RSC14", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38210", "url": "https://www.uniprot.org/uniprotkb/P38210" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38210" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000102", "url": "https://www.yeastgenome.org/locus/S000000102", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38210", "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": "ATELQQLTQQSHATDKGIEG", "down_seq": "ENSKAKVSKPKRVAVHGYLG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000102", "url": "https://www.yeastgenome.org/locus/S000000102" }, { "database": "iPTMnet", "id": "P38210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38210" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser48" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "142", "end_pos": "142" }, { "start_pos": "48", "end_pos": "48" } ] } ], "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": "P38251-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P38251-1", "length": 354, "uniprot_id": "RFC5_YEAST", "protein_name": "Replication factor C subunit 5", "refseq_ac": "NP_009644", "refseq_name": "replication factor C subunit 5", "gene_name": "RFC5", "gene_names_uniprotkb": "RFC5; YBR0810", "gene_names_refseq": "RFC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38251", "url": "https://www.uniprot.org/uniprotkb/P38251" } ], "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": "P38251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38251" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38251", "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": "M", "down_seq": "LWVDKYRPKSLNALSHNEEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38251" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38251-1.8.8", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38251-1.8.8", "start_pos": 8, "end_pos": 8, "uniprot_canonical_ac": "P38251-1", "length": 354, "uniprot_id": "RFC5_YEAST", "protein_name": "Replication factor C subunit 5", "refseq_ac": "NP_009644", "refseq_name": "replication factor C subunit 5", "gene_name": "RFC5", "gene_names_uniprotkb": "RFC5; YBR0810", "gene_names_refseq": "RFC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38251", "url": "https://www.uniprot.org/uniprotkb/P38251" } ], "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": "P38251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38251" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38251", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "MSLWVDK", "down_seq": "RPKSLNALSHNEELTNFLKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38251", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38251" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Tyr8" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38251-1.2.2", "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": "P38255-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "P38255-1", "length": 430, "uniprot_id": "RXT2_YEAST", "protein_name": "Transcriptional regulatory protein RXT2", "refseq_ac": "NP_009653", "refseq_name": "Rxt2p", "gene_name": "RXT2", "gene_names_uniprotkb": "RXT2; RAF60; YBR0822", "gene_names_refseq": "RAF60; RXT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38255", "url": "https://www.uniprot.org/uniprotkb/P38255" } ], "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": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FTPDINVEPVLVGDENDIDG", "down_seq": "EKEDENITDEYYGEEDDDDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299" } ], "site_lbl": "Ser136" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "396", "end_pos": "396" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P38255-1.144.144", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38255-1.144.144", "start_pos": 144, "end_pos": 144, "uniprot_canonical_ac": "P38255-1", "length": 430, "uniprot_id": "RXT2_YEAST", "protein_name": "Transcriptional regulatory protein RXT2", "refseq_ac": "NP_009653", "refseq_name": "Rxt2p", "gene_name": "RXT2", "gene_names_uniprotkb": "RXT2; RAF60; YBR0822", "gene_names_refseq": "RAF60; RXT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38255", "url": "https://www.uniprot.org/uniprotkb/P38255" } ], "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": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255", "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": "PVLVGDENDIDGSEKEDENI", "down_seq": "DEYYGEEDDDDLSKLVNVKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr144" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "396", "end_pos": "396" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38255-1.136.136", "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": "P38255-1.167.167", "start_pos": 167, "end_pos": 167, "uniprot_canonical_ac": "P38255-1", "length": 430, "uniprot_id": "RXT2_YEAST", "protein_name": "Transcriptional regulatory protein RXT2", "refseq_ac": "NP_009653", "refseq_name": "Rxt2p", "gene_name": "RXT2", "gene_names_uniprotkb": "RXT2; RAF60; YBR0822", "gene_names_refseq": "RAF60; RXT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38255", "url": "https://www.uniprot.org/uniprotkb/P38255" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255", "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": "YYGEEDDDDLSKLVNVKEIL", "down_seq": "PILSLGDIINHKTISRTFSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299" }, { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr167" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "396", "end_pos": "396" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38255-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38255-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38255-1.187.187", "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": "P38255-1.171.171", "start_pos": 171, "end_pos": 171, "uniprot_canonical_ac": "P38255-1", "length": 430, "uniprot_id": "RXT2_YEAST", "protein_name": "Transcriptional regulatory protein RXT2", "refseq_ac": "NP_009653", "refseq_name": "Rxt2p", "gene_name": "RXT2", "gene_names_uniprotkb": "RXT2; RAF60; YBR0822", "gene_names_refseq": "RAF60; RXT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38255", "url": "https://www.uniprot.org/uniprotkb/P38255" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255", "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": "EDDDDLSKLVNVKEILTPIL", "down_seq": "LGDIINHKTISRTFSSPILK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299" }, { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser171" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "396", "end_pos": "396" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38255-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38255-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38255-1.187.187", "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": "P38255-1.186.186", "start_pos": 186, "end_pos": 186, "uniprot_canonical_ac": "P38255-1", "length": 430, "uniprot_id": "RXT2_YEAST", "protein_name": "Transcriptional regulatory protein RXT2", "refseq_ac": "NP_009653", "refseq_name": "Rxt2p", "gene_name": "RXT2", "gene_names_uniprotkb": "RXT2; RAF60; YBR0822", "gene_names_refseq": "RAF60; RXT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38255", "url": "https://www.uniprot.org/uniprotkb/P38255" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255", "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": "LTPILSLGDIINHKTISRTF", "down_seq": "SPILKNLALQIILMIEKEQM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299" }, { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser186" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "396", "end_pos": "396" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38255-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38255-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38255-1.187.187", "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": "P38255-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "P38255-1", "length": 430, "uniprot_id": "RXT2_YEAST", "protein_name": "Transcriptional regulatory protein RXT2", "refseq_ac": "NP_009653", "refseq_name": "Rxt2p", "gene_name": "RXT2", "gene_names_uniprotkb": "RXT2; RAF60; YBR0822", "gene_names_refseq": "RAF60; RXT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38255", "url": "https://www.uniprot.org/uniprotkb/P38255" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255", "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": "TPILSLGDIINHKTISRTFS", "down_seq": "PILKNLALQIILMIEKEQMS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299" }, { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser187" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "396", "end_pos": "396" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38255-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38255-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38255-1.186.186", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38255-1.249.249", "start_pos": 249, "end_pos": 249, "uniprot_canonical_ac": "P38255-1", "length": 430, "uniprot_id": "RXT2_YEAST", "protein_name": "Transcriptional regulatory protein RXT2", "refseq_ac": "NP_009653", "refseq_name": "Rxt2p", "gene_name": "RXT2", "gene_names_uniprotkb": "RXT2; RAF60; YBR0822", "gene_names_refseq": "RAF60; RXT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38255", "url": "https://www.uniprot.org/uniprotkb/P38255" } ], "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": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "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": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "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": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "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": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255", "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": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299", "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": "SNLNLPSYNHNLTLPEDRGA", "down_seq": "DEDDINNKNNINEVNSNSLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" }, { "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": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299" }, { "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": "Ser249" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "396", "end_pos": "396" } ] } ], "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": "P38255-1.377.377", "start_pos": 377, "end_pos": 377, "uniprot_canonical_ac": "P38255-1", "length": 430, "uniprot_id": "RXT2_YEAST", "protein_name": "Transcriptional regulatory protein RXT2", "refseq_ac": "NP_009653", "refseq_name": "Rxt2p", "gene_name": "RXT2", "gene_names_uniprotkb": "RXT2; RAF60; YBR0822", "gene_names_refseq": "RAF60; RXT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38255", "url": "https://www.uniprot.org/uniprotkb/P38255" } ], "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": "P38255", "url": "https://www.uniprot.org/uniprotkb/P38255" }, { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "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": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "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": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255", "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": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299", "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": "IKANRIRGRILNWSREYLGI", "down_seq": "DDDITIPVALRVVKRGLISA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" }, { "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": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299" }, { "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": "136", "end_pos": "136" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "396", "end_pos": "396" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P38255-1.396.396", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38255-1.396.396", "start_pos": 396, "end_pos": 396, "uniprot_canonical_ac": "P38255-1", "length": 430, "uniprot_id": "RXT2_YEAST", "protein_name": "Transcriptional regulatory protein RXT2", "refseq_ac": "NP_009653", "refseq_name": "Rxt2p", "gene_name": "RXT2", "gene_names_uniprotkb": "RXT2; RAF60; YBR0822", "gene_names_refseq": "RAF60; RXT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38255", "url": "https://www.uniprot.org/uniprotkb/P38255" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255", "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": "ISDDDITIPVALRVVKRGLI", "down_seq": "ATTNKTTNFEEEIENTMEDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000299", "url": "https://www.yeastgenome.org/locus/S000000299" }, { "database": "iPTMnet", "id": "P38255", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38255" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser396" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "396", "end_pos": "396" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38255-1.377.377", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.470.470", "start_pos": 470, "end_pos": 470, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "RDRGAVVHQEPAPSGKIQPN", "down_seq": "TSSAASLPAKHSRTTTADNE", "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": "Thr470", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr470" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38266-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38266-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38266-1.472.472", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38266-1.473.473", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.476.476", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38266-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38266-1.486.486", "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": "P38266-1.471.471", "start_pos": 471, "end_pos": 471, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "DRGAVVHQEPAPSGKIQPNT", "down_seq": "SSAASLPAKHSRTTTADNER", "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": "Thr471", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr471" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38266-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38266-1.470.470", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38266-1.472.472", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38266-1.473.473", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38266-1.476.476", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38266-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38266-1.486.486", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.472.472", "start_pos": 472, "end_pos": 472, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RGAVVHQEPAPSGKIQPNTT", "down_seq": "SAASLPAKHSRTTTADNERN", "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": "Ser472", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38266-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38266-1.470.470", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38266-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38266-1.473.473", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.476.476", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38266-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38266-1.486.486", "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": "P38266-1.473.473", "start_pos": 473, "end_pos": 473, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "GAVVHQEPAPSGKIQPNTTS", "down_seq": "AASLPAKHSRTTTADNERNS", "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": "Ser473", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser473" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38266-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38266-1.470.470", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38266-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38266-1.472.472", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38266-1.476.476", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38266-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38266-1.486.486", "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": "P38266-1.476.476", "start_pos": 476, "end_pos": 476, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "VHQEPAPSGKIQPNTTSSAA", "down_seq": "LPAKHSRTTTADNERNSGNK", "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": "Ser476", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "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": "Ser476" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38266-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38266-1.470.470", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38266-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38266-1.472.472", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38266-1.473.473", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38266-1.486.486", "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": "P38266-1.631.631", "start_pos": 631, "end_pos": 631, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EMKGEVLPGHPSEEDRNVEP", "down_seq": "LVPQSKPQSQSQFRRAHMET", "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": "Ser631", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38266-1.636.636", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38266-1.640.640", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38266-1.642.642", "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": "P38266-1.636.636", "start_pos": 636, "end_pos": 636, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VLPGHPSEEDRNVEPSLVPQ", "down_seq": "KPQSQSQFRRAHMETQPIQN", "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": "Ser636", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38266-1.631.631", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.640.640", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.642.642", "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": "P38266-1.640.640", "start_pos": 640, "end_pos": 640, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HPSEEDRNVEPSLVPQSKPQ", "down_seq": "QSQFRRAHMETQPIQNFQPP", "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": "Ser640", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38266-1.631.631", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38266-1.636.636", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38266-1.642.642", "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": "P38266-1.642.642", "start_pos": 642, "end_pos": 642, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SEEDRNVEPSLVPQSKPQSQ", "down_seq": "QFRRAHMETQPIQNFQPPPK", "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": "Ser642", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38266-1.631.631", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38266-1.636.636", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38266-1.640.640", "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": "P38266-1.667.667", "start_pos": 667, "end_pos": 667, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "AHMETQPIQNFQPPPKPFRR", "down_seq": "QSSNSSDSSYTIDGPEANHG", "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": "Ser667", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser667" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38266-1.669.669", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38266-1.670.670", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38266-1.672.672", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.673.673", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38266-1.675.675", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38266-1.676.676", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38266-1.678.678", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.669.669", "start_pos": 669, "end_pos": 669, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "METQPIQNFQPPPKPFRRSQ", "down_seq": "SNSSDSSYTIDGPEANHGRG", "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": "Ser669", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "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": "Ser669" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38266-1.667.667", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38266-1.670.670", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38266-1.672.672", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.673.673", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.675.675", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38266-1.676.676", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38266-1.678.678", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.670.670", "start_pos": 670, "end_pos": 670, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "ETQPIQNFQPPPKPFRRSQS", "down_seq": "NSSDSSYTIDGPEANHGRGR", "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": "Ser670", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser670" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38266-1.667.667", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38266-1.669.669", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38266-1.672.672", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38266-1.673.673", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38266-1.675.675", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.676.676", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38266-1.678.678", "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": "P38266-1.672.672", "start_pos": 672, "end_pos": 672, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "QPIQNFQPPPKPFRRSQSSN", "down_seq": "SDSSYTIDGPEANHGRGRGR", "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": "Ser672", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser672" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38266-1.667.667", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38266-1.669.669", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38266-1.670.670", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38266-1.673.673", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38266-1.675.675", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.676.676", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.678.678", "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": "P38266-1.673.673", "start_pos": 673, "end_pos": 673, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "PIQNFQPPPKPFRRSQSSNS", "down_seq": "DSSYTIDGPEANHGRGRGRI", "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": "Ser673", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser673" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38266-1.667.667", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38266-1.669.669", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38266-1.670.670", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38266-1.672.672", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38266-1.675.675", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38266-1.676.676", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38266-1.678.678", "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": "P38266-1.675.675", "start_pos": 675, "end_pos": 675, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QNFQPPPKPFRRSQSSNSSD", "down_seq": "SYTIDGPEANHGRGRGRIAK", "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": "Ser675", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38266-1.667.667", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38266-1.669.669", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38266-1.670.670", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38266-1.672.672", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38266-1.673.673", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38266-1.676.676", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38266-1.678.678", "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": "P38266-1.676.676", "start_pos": 676, "end_pos": 676, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "NFQPPPKPFRRSQSSNSSDS", "down_seq": "YTIDGPEANHGRGRGRIAKH", "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": "Ser676", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser676" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38266-1.667.667", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38266-1.669.669", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38266-1.670.670", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38266-1.672.672", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38266-1.673.673", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38266-1.675.675", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38266-1.678.678", "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": "P38266-1.729.729", "start_pos": 729, "end_pos": 729, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266", "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "STENGRLGDAPNSFIRKRAP", "down_seq": "PPAPSRSEKLHEGTITSEVD", "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": "Thr729", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "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": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "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": "Thr729" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38266-1.709.709", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38266-1.721.721", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38266-1.746.746", "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": 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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.746.746", "start_pos": 746, "end_pos": 746, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RAPTPPAPSRSEKLHEGTIT", "down_seq": "EVDSSKDANKYEKSIPPVTS", "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": "Ser746", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38266-1.729.729", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.750.750", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38266-1.751.751", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38266-1.760.760", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38266-1.766.766", "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": "P38266-1.750.750", "start_pos": 750, "end_pos": 750, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "PPAPSRSEKLHEGTITSEVD", "down_seq": "SKDANKYEKSIPPVTSSIQA", "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": "Ser750", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser750" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38266-1.746.746", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38266-1.751.751", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38266-1.760.760", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38266-1.766.766", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38266-1.767.767", "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": "P38266-1.751.751", "start_pos": 751, "end_pos": 751, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PAPSRSEKLHEGTITSEVDS", "down_seq": "KDANKYEKSIPPVTSSIQAQ", "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": "Ser751", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38266-1.746.746", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38266-1.750.750", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38266-1.760.760", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38266-1.766.766", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38266-1.767.767", "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": "P38266-1.760.760", "start_pos": 760, "end_pos": 760, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HEGTITSEVDSSKDANKYEK", "down_seq": "IPPVTSSIQAQQSTKKAPPP", "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": "Ser760", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38266-1.746.746", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38266-1.750.750", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38266-1.751.751", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.766.766", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38266-1.767.767", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38266-1.773.773", "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": "P38266-1.766.766", "start_pos": 766, "end_pos": 766, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SEVDSSKDANKYEKSIPPVT", "down_seq": "SIQAQQSTKKAPPPVVKPKP", "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": "Ser766", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38266-1.746.746", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38266-1.750.750", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38266-1.751.751", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38266-1.760.760", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38266-1.767.767", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38266-1.773.773", "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": "P38266-1.767.767", "start_pos": 767, "end_pos": 767, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EVDSSKDANKYEKSIPPVTS", "down_seq": "IQAQQSTKKAPPPVVKPKPR", "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": "Ser767", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38266-1.750.750", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38266-1.751.751", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38266-1.760.760", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38266-1.766.766", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.773.773", "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": "P38266-1.773.773", "start_pos": 773, "end_pos": 773, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DANKYEKSIPPVTSSIQAQQ", "down_seq": "TKKAPPPVVKPKPRNFSLKA", "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": "Ser773", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38266-1.760.760", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38266-1.766.766", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38266-1.767.767", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38266-1.790.790", "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": "P38266-1.915.915", "start_pos": 915, "end_pos": 915, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "KKKPLLKSLEPRPIEMERAY", "down_seq": "GDISAADDNLNPFERYKRNV", "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": "Ser915", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "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": "Ser915" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38266-1.914.914", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.919.919", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.919.919", "start_pos": 919, "end_pos": 919, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LLKSLEPRPIEMERAYSGDI", "down_seq": "AADDNLNPFERYKRNVVPQE", "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": "Ser919", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38266", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38266" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" } ], "site_lbl": "Ser919" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38266-1.914.914", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38266-1.915.915", "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": "P38266-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" }, { "database": "O-GlcNAc Atlas", "id": "P38266", "url": "https://oglcnac.org/atlas/detail/P38266" } ], "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": "P38266", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266", "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": "P38266", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38266" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "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": "P38266-1.463.463", "start_pos": 463, "end_pos": 463, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "LPPPPTHRDRGAVVHQEPAP", "down_seq": "GKIQPNTTSSAASLPAKHSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser463" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38266-1.470.470", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38266-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38266-1.472.472", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38266-1.473.473", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38266-1.476.476", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38266-1.482.482", "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": "P38266-1.482.482", "start_pos": 482, "end_pos": 482, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "PSGKIQPNTTSSAASLPAKH", "down_seq": "RTTTADNERNSGNKENDEST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser482" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38266-1.463.463", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38266-1.470.470", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38266-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38266-1.472.472", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38266-1.473.473", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38266-1.476.476", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.486.486", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.486.486", "start_pos": 486, "end_pos": 486, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "IQPNTTSSAASLPAKHSRTT", "down_seq": "ADNERNSGNKENDESTSKSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr486" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38266-1.470.470", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38266-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38266-1.472.472", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38266-1.473.473", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38266-1.476.476", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38266-1.482.482", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKKHYNNSKARRERKSGKKN", "down_seq": "SDEEYDSEDEMEYERKPTDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser57" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38266-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38266-1.64.64", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.58.58", "start_pos": 58, "end_pos": 58, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "KKHYNNSKARRERKSGKKNS", "down_seq": "DEEYDSEDEMEYERKPTDIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser58" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38266-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.64.64", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.608.608", "start_pos": 608, "end_pos": 608, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "LPPPKPFRHTETKQNQNSKA", "down_seq": "PVEMKGEVLPGHPSEEDRNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser608" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "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": "P38266-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "SKARRERKSGKKNSSDEEYD", "down_seq": "EDEMEYERKPTDIRSLKDPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser64" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38266-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38266-1.58.58", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.678.678", "start_pos": 678, "end_pos": 678, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "QPPPKPFRRSQSSNSSDSSY", "down_seq": "IDGPEANHGRGRGRIAKHHD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr678" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38266-1.667.667", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38266-1.669.669", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38266-1.670.670", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38266-1.672.672", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38266-1.673.673", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38266-1.675.675", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38266-1.676.676", "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": "P38266-1.709.709", "start_pos": 709, "end_pos": 709, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "GRGRIAKHHDGDEYNPKSEN", "down_seq": "TENGRLGDAPNSFIRKRAPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser709" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P38266-1.721.721", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38266-1.729.729", "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": "P38266-1.721.721", "start_pos": 721, "end_pos": 721, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "EYNPKSENSTENGRLGDAPN", "down_seq": "FIRKRAPTPPAPSRSEKLHE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser721" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38266-1.709.709", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38266-1.729.729", "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": "P38266-1.790.790", "start_pos": 790, "end_pos": 790, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "AQQSTKKAPPPVVKPKPRNF", "down_seq": "LKANEYPKELTREATGQDEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser790" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38266-1.773.773", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38266-1.801.801", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38266-1.805.805", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.801.801", "start_pos": 801, "end_pos": 801, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "VVKPKPRNFSLKANEYPKEL", "down_seq": "REATGQDEVLNSITNELSHI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Thr801" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38266-1.790.790", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.805.805", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.805.805", "start_pos": 805, "end_pos": 805, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "T", "start_aa": "T", "up_seq": "KPRNFSLKANEYPKELTREA", "down_seq": "GQDEVLNSITNELSHIKLRK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "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": "Thr805" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38266-1.790.790", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38266-1.801.801", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38266-1.826.826", "start_pos": 826, "end_pos": 826, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GQDEVLNSITNELSHIKLRK", "down_seq": "NVNLEKLGGSKKVKDSSPVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" } ], "site_lbl": "Thr826" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P38266-1.842.842", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38266-1.843.843", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.842.842", "start_pos": 842, "end_pos": 842, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "KLRKTNVNLEKLGGSKKVKD", "down_seq": "SPVPSDLDEKYVSASGSITP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "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": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "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": "Ser842" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38266-1.826.826", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38266-1.843.843", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38266-1.847.847", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38266-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38266-1.857.857", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38266-1.859.859", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38266-1.861.861", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38266-1.843.843", "start_pos": 843, "end_pos": 843, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "LRKTNVNLEKLGGSKKVKDS", "down_seq": "PVPSDLDEKYVSASGSITPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "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": "Ser843" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38266-1.826.826", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38266-1.842.842", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.847.847", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38266-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38266-1.857.857", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38266-1.859.859", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38266-1.861.861", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38266-1.847.847", "start_pos": 847, "end_pos": 847, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "NVNLEKLGGSKKVKDSSPVP", "down_seq": "DLDEKYVSASGSITPPRPPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "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": "Ser847" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38266-1.842.842", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38266-1.843.843", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38266-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38266-1.857.857", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38266-1.859.859", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38266-1.861.861", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38266-1.855.855", "start_pos": 855, "end_pos": 855, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "GSKKVKDSSPVPSDLDEKYV", "down_seq": "ASGSITPPRPPPSRSSPKKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser855" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38266-1.842.842", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38266-1.843.843", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38266-1.847.847", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38266-1.857.857", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.859.859", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38266-1.861.861", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38266-1.868.868", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.857.857", "start_pos": 857, "end_pos": 857, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "KKVKDSSPVPSDLDEKYVSA", "down_seq": "GSITPPRPPPSRSSPKKVPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser857" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38266-1.842.842", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38266-1.843.843", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38266-1.847.847", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38266-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38266-1.859.859", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38266-1.861.861", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38266-1.868.868", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.859.859", "start_pos": 859, "end_pos": 859, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "VKDSSPVPSDLDEKYVSASG", "down_seq": "ITPPRPPPSRSSPKKVPPVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "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": "Ser859" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38266-1.842.842", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38266-1.843.843", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38266-1.847.847", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38266-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38266-1.857.857", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38266-1.861.861", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38266-1.868.868", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38266-1.861.861", "start_pos": 861, "end_pos": 861, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "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": "DSSPVPSDLDEKYVSASGSI", "down_seq": "PPRPPPSRSSPKKVPPVVPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "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": "Thr861" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38266-1.842.842", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38266-1.843.843", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38266-1.847.847", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38266-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38266-1.857.857", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38266-1.859.859", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38266-1.868.868", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38266-1.868.868", "start_pos": 868, "end_pos": 868, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "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": "DLDEKYVSASGSITPPRPPP", "down_seq": "RSSPKKVPPVVPKKNDNLKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser868" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38266-1.855.855", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38266-1.857.857", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38266-1.859.859", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38266-1.861.861", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38266-1.914.914", "start_pos": 914, "end_pos": 914, "uniprot_canonical_ac": "P38266-1", "length": 947, "uniprot_id": "AIM3_YEAST", "protein_name": "Altered inheritance of mitochondria protein 3", "refseq_ac": "NP_009666", "refseq_name": "Aim3p", "gene_name": "AIM3", "gene_names_uniprotkb": "AIM3; YBR0901", "gene_names_refseq": "AIM3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" } ], "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": "P38266", "url": "https://www.uniprot.org/uniprotkb/P38266" }, { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "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": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "PKKKPLLKSLEPRPIEMERA", "down_seq": "SGDISAADDNLNPFERYKRN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38266", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38266" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000312", "url": "https://www.yeastgenome.org/locus/S000000312" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr914" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "636", "end_pos": "636" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "751", "end_pos": "751" }, { "start_pos": "760", "end_pos": "760" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "463", "end_pos": "463" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "473", "end_pos": "473" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "486", "end_pos": "486" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "670", "end_pos": "670" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "709", "end_pos": "709" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "729", "end_pos": "729" }, { "start_pos": "750", "end_pos": "750" }, { "start_pos": "790", "end_pos": "790" }, { "start_pos": "801", "end_pos": "801" }, { "start_pos": "805", "end_pos": "805" }, { "start_pos": "826", "end_pos": "826" }, { "start_pos": "842", "end_pos": "842" }, { "start_pos": "843", "end_pos": "843" }, { "start_pos": "847", "end_pos": "847" }, { "start_pos": "855", "end_pos": "855" }, { "start_pos": "857", "end_pos": "857" }, { "start_pos": "859", "end_pos": "859" }, { "start_pos": "861", "end_pos": "861" }, { "start_pos": "868", "end_pos": "868" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "915", "end_pos": "915" }, { "start_pos": "919", "end_pos": "919" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38266-1.915.915", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38266-1.919.919", "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": "P38272-1.343.343", "start_pos": 343, "end_pos": 343, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "She3p possesses a novel activity required for ASH1 mRNA localization in Saccharomyces cerevisiae.", "journal": "Eukaryotic cell", "date": "2009-07", "authors": "Landers Sharon M, Gallas Michelle R, Little Jaime, Long Roy M", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778" } ] }, { "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "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": "KTPNTNDSSSNGNSSNNKRR", "down_seq": "FYTASPLLSSGSIPKSASPV", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "E", "comment": "Prevents correct localization of ASH1 mRNA; when associated with E-361.", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "PubMed", "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778" }, { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "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": "Ser343" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38272-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38272-1.348.348", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38272-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38272-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38272-1.361.361", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.348.348", "start_pos": 348, "end_pos": 348, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "She3p possesses a novel activity required for ASH1 mRNA localization in Saccharomyces cerevisiae.", "journal": "Eukaryotic cell", "date": "2009-07", "authors": "Landers Sharon M, Gallas Michelle R, Little Jaime, Long Roy M", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & 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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "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": "NDSSSNGNSSNNKRRSFYTA", "down_seq": "PLLSSGSIPKSASPVLPGVK", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "E", "comment": "Prevents correct localization of ASH1 mRNA.", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "PubMed", "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "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": "19429778", "url": "https://glygen.org/publication/PubMed/19429778" }, { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "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": "Ser348" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38272-1.343.343", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38272-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38272-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38272-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38272-1.361.361", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.361.361", "start_pos": 361, "end_pos": 361, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "She3p possesses a novel activity required for ASH1 mRNA localization in Saccharomyces cerevisiae.", "journal": "Eukaryotic cell", "date": "2009-07", "authors": "Landers Sharon M, Gallas Michelle R, Little Jaime, Long Roy M", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778" } ] }, { "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "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": "RRSFYTASPLLSSGSIPKSA", "down_seq": "PVLPGVKRTASVRKPSSSSS", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "E", "comment": "Prevents correct localization of ASH1 mRNA; when associated with E-343.", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "PubMed", "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "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": "PubMed", "id": "19429778", "url": "https://glygen.org/publication/PubMed/19429778" }, { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "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": "Ser361" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38272-1.343.343", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38272-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38272-1.348.348", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38272-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38272-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38272-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38272-1.372.372", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38272-1.377.377", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 13 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.10.10", "start_pos": 10, "end_pos": 10, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "MSDQDNTQT", "down_seq": "SSKLAPHHNIFMANLESSPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser10" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38272-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38272-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38272-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38272-1.30.30", "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": "P38272-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "NYNSLLESQNLYRDHYSDEI", "down_seq": "KLNEKIGLLELELSNQNLNY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser177" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "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": "P38272-1.217.217", "start_pos": 217, "end_pos": 217, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YGSDTSSNSDIELNLNKFND", "down_seq": "VKDLKSLETEKDSKLSKIIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser217" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38272-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38272-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38272-1.237.237", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "SNSDIELNLNKFNDSVKDLK", "down_seq": "LETEKDSKLSKIITHSLDEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser223" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38272-1.217.217", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38272-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38272-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38272-1.239.239", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.233.233", "start_pos": 233, "end_pos": 233, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "KFNDSVKDLKSLETEKDSKL", "down_seq": "KIITHSLDELNLQSWLNLYQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser233" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38272-1.217.217", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38272-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38272-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38272-1.239.239", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "SVKDLKSLETEKDSKLSKII", "down_seq": "HSLDELNLQSWLNLYQTNEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr237" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38272-1.217.217", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38272-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38272-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38272-1.239.239", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.239.239", "start_pos": 239, "end_pos": 239, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "KDLKSLETEKDSKLSKIITH", "down_seq": "LDELNLQSWLNLYQTNENLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser239" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38272-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38272-1.233.233", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38272-1.237.237", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.27.27", "start_pos": 27, "end_pos": 27, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "TQTSSSKLAPHHNIFMANLE", "down_seq": "SPTKDRNTSSQNASSSRVIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser27" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38272-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38272-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38272-1.30.30", "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": "P38272-1.28.28", "start_pos": 28, "end_pos": 28, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "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": "QTSSSKLAPHHNIFMANLES", "down_seq": "PTKDRNTSSQNASSSRVIES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "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": "Ser28" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38272-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38272-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38272-1.30.30", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "NDEKISNKGAVVQTLKKNVQ", "down_seq": "QVESNNADALSSNNAQDMLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr295" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38272-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38272-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38272-1.307.307", "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": "P38272-1.299.299", "start_pos": 299, "end_pos": 299, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "ISNKGAVVQTLKKNVQTQVE", "down_seq": "NNADALSSNNAQDMLPIKMV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser299" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38272-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38272-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38272-1.307.307", "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": "P38272-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "DQDNTQTSSSKLAPHHNIFM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P38272-1.10.10", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.306.306", "start_pos": 306, "end_pos": 306, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "VQTLKKNVQTQVESNNADAL", "down_seq": "SNNAQDMLPIKMVKLRKTPN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser306" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38272-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38272-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38272-1.307.307", "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": "P38272-1.307.307", "start_pos": 307, "end_pos": 307, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "QTLKKNVQTQVESNNADALS", "down_seq": "NNAQDMLPIKMVKLRKTPNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser307" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38272-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38272-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38272-1.306.306", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.30.30", "start_pos": 30, "end_pos": 30, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "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": "SSSKLAPHHNIFMANLESSP", "down_seq": "KDRNTSSQNASSSRVIESLH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr30" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38272-1.10.10", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38272-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38272-1.28.28", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.346.346", "start_pos": 346, "end_pos": 346, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "NTNDSSSNGNSSNNKRRSFY", "down_seq": "ASPLLSSGSIPKSASPVLPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr346" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38272-1.343.343", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38272-1.348.348", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38272-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38272-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38272-1.361.361", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.352.352", "start_pos": 352, "end_pos": 352, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "SNGNSSNNKRRSFYTASPLL", "down_seq": "SGSIPKSASPVLPGVKRTAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser352" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38272-1.343.343", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38272-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38272-1.348.348", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38272-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38272-1.361.361", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38272-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38272-1.372.372", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.359.359", "start_pos": 359, "end_pos": 359, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "NKRRSFYTASPLLSSGSIPK", "down_seq": "ASPVLPGVKRTASVRKPSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser359" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38272-1.343.343", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38272-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38272-1.348.348", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38272-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38272-1.361.361", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38272-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38272-1.372.372", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38272-1.377.377", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.370.370", "start_pos": 370, "end_pos": 370, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LLSSGSIPKSASPVLPGVKR", "down_seq": "ASVRKPSSSSSKTNVTHNND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "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": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" } ], "site_lbl": "Thr370" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38272-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38272-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38272-1.361.361", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38272-1.372.372", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38272-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38272-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38272-1.386.386", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.372.372", "start_pos": 372, "end_pos": 372, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSGSIPKSASPVLPGVKRTA", "down_seq": "VRKPSSSSSKTNVTHNNDPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser372" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38272-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38272-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38272-1.361.361", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38272-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38272-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38272-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38272-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38272-1.392.392", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.377.377", "start_pos": 377, "end_pos": 377, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "PKSASPVLPGVKRTASVRKP", "down_seq": "SSSSKTNVTHNNDPSTSPTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser377" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38272-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38272-1.361.361", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38272-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38272-1.372.372", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38272-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38272-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38272-1.392.392", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38272-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38272-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38272-1.396.396", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.383.383", "start_pos": 383, "end_pos": 383, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "VLPGVKRTASVRKPSSSSSK", "down_seq": "NVTHNNDPSTSPTISVPPGV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr383" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38272-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38272-1.372.372", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38272-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38272-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38272-1.392.392", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38272-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38272-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38272-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38272-1.398.398", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.386.386", "start_pos": 386, "end_pos": 386, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "GVKRTASVRKPSSSSSKTNV", "down_seq": "HNNDPSTSPTISVPPGVTRT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr386" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38272-1.370.370", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38272-1.372.372", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38272-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38272-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38272-1.392.392", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38272-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38272-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38272-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38272-1.398.398", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.392.392", "start_pos": 392, "end_pos": 392, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "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": "SVRKPSSSSSKTNVTHNNDP", "down_seq": "TSPTISVPPGVTRTVSSTHK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser392" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38272-1.372.372", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38272-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38272-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38272-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38272-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38272-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38272-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38272-1.398.398", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.393.393", "start_pos": 393, "end_pos": 393, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "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": "VRKPSSSSSKTNVTHNNDPS", "down_seq": "SPTISVPPGVTRTVSSTHKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "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": "Thr393" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38272-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38272-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38272-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38272-1.392.392", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38272-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38272-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38272-1.398.398", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.394.394", "start_pos": 394, "end_pos": 394, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272", "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "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": "RKPSSSSSKTNVTHNNDPST", "down_seq": "PTISVPPGVTRTVSSTHKKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" }, { "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "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": "Ser394" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38272-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38272-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38272-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38272-1.392.392", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38272-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38272-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38272-1.398.398", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.396.396", "start_pos": 396, "end_pos": 396, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "PSSSSSKTNVTHNNDPSTSP", "down_seq": "ISVPPGVTRTVSSTHKKKGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr396" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38272-1.377.377", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38272-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38272-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38272-1.392.392", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38272-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38272-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38272-1.398.398", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.398.398", "start_pos": 398, "end_pos": 398, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "SSSSKTNVTHNNDPSTSPTI", "down_seq": "VPPGVTRTVSSTHKKKGNSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser398" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38272-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38272-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38272-1.392.392", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38272-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38272-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38272-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38272-1.417.417", "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": "P38272-1.417.417", "start_pos": 417, "end_pos": 417, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "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": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "ISVPPGVTRTVSSTHKKKGN", "down_seq": "MVVHGAQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser417" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38272-1.398.398", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38272-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "NASSSRVIESLHDQIDMLTK", "down_seq": "NLQLTTQSQNLLSKLELAQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr59" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38272-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38272-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38272-1.67.67", "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": "P38272-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "RVIESLHDQIDMLTKTNLQL", "down_seq": "TQSQNLLSKLELAQSKESKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr64" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38272-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38272-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38272-1.67.67", "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": "P38272-1.65.65", "start_pos": 65, "end_pos": 65, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "VIESLHDQIDMLTKTNLQLT", "down_seq": "QSQNLLSKLELAQSKESKLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr65" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38272-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38272-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38272-1.67.67", "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": "P38272-1.67.67", "start_pos": 67, "end_pos": 67, "uniprot_canonical_ac": "P38272-1", "length": 425, "uniprot_id": "SHE3_YEAST", "protein_name": "SWI5-dependent HO expression protein 3", "refseq_ac": "NP_009688", "refseq_name": "She3p", "gene_name": "SHE3", "gene_names_uniprotkb": "SHE3; YBR1005", "gene_names_refseq": "SHE3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38272", "url": "https://www.uniprot.org/uniprotkb/P38272" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272", "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": "ESLHDQIDMLTKTNLQLTTQ", "down_seq": "QNLLSKLELAQSKESKLLEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000334", "url": "https://www.yeastgenome.org/locus/S000000334" }, { "database": "iPTMnet", "id": "P38272", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38272" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser67" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "343", "end_pos": "343" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "361", "end_pos": "361" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "233", "end_pos": "233" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "67", "end_pos": "67" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38272-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38272-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38272-1.65.65", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.387.387", "start_pos": 387, "end_pos": 387, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Hsl7 is a substrate-specific type II protein arginine methyltransferase in yeast.", "journal": "Biochemical and biophysical research communications", "date": "2008-08-08", "authors": "Sayegh Joyce, Clarke Steven G", "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "reference": [ { "type": "PubMed", "id": "18515076", "url": "https://glygen.org/publication/PubMed/18515076" } ] } ], "crossref": [ { "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18515076", "url": "https://glygen.org/publication/PubMed/18515076", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "QDLAPRASAKRPLVILVAGA", "down_seq": "RGPLVDRTFKIISMLFMDSK", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "A", "comment": "Almost completely abolishes catalytic activity.", "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" }, { "database": "PubMed", "id": "18515076", "url": "https://glygen.org/publication/PubMed/18515076" } ] }, { "sequence_org": "G", "sequence_mut": "V", "comment": "Completely abolishes catalytic activity; when associated with V-389.", "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" }, { "database": "PubMed", "id": "18515076", "url": "https://glygen.org/publication/PubMed/18515076" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38274-1.389.389", "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": "P38274-1.389.389", "start_pos": 389, "end_pos": 389, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Hsl7 is a substrate-specific type II protein arginine methyltransferase in yeast.", "journal": "Biochemical and biophysical research communications", "date": "2008-08-08", "authors": "Sayegh Joyce, Clarke Steven G", "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "reference": [ { "type": "PubMed", "id": "18515076", "url": "https://glygen.org/publication/PubMed/18515076" } ] } ], "crossref": [ { "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18515076", "url": "https://glygen.org/publication/PubMed/18515076", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "LAPRASAKRPLVILVAGAGR", "down_seq": "PLVDRTFKIISMLFMDSKVS", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "V", "comment": "Completely abolishes catalytic activity; when associated with V-387.", "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" }, { "database": "PubMed", "id": "18515076", "url": "https://glygen.org/publication/PubMed/18515076" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38274-1.387.387", "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": "P38274-1.221.221", "start_pos": 221, "end_pos": 221, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "QCEYHPSLTISLALPRTRTP", "down_seq": "YVLNRWLAEPVSCLLVSSSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser221" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "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": "P38274-1.29.29", "start_pos": 29, "end_pos": 29, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "VKPGFNHKQHSKKSRFLENV", "down_seq": "SHSPELPSNYDYVLLPITTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser29" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38274-1.32.32", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.315.315", "start_pos": 315, "end_pos": 315, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "ESAYLEYINYLLKKGDKVLN", "down_seq": "NSNHQFLLQEDSRIMPPLKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser315" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38274-1.317.317", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38274-1.327.327", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.317.317", "start_pos": 317, "end_pos": 317, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "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": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "AYLEYINYLLKKGDKVLNSN", "down_seq": "NHQFLLQEDSRIMPPLKPHS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser317" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38274-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38274-1.327.327", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38274-1.327.327", "start_pos": 327, "end_pos": 327, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "KKGDKVLNSNSNHQFLLQED", "down_seq": "RIMPPLKPHSDNLLNSTYLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser327" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38274-1.315.315", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38274-1.317.317", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38274-1.343.343", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "GFNHKQHSKKSRFLENVSSH", "down_seq": "PELPSNYDYVLLPITTPRYK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser32" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38274-1.29.29", "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": "P38274-1.343.343", "start_pos": 343, "end_pos": 343, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "LQEDSRIMPPLKPHSDNLLN", "down_seq": "TYLTFEKDLVKYDLYESAIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ], "site_lbl": "Ser343" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38274-1.327.327", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.611.611", "start_pos": 611, "end_pos": 611, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "LYNNIFLSTLPNDSTVRLKF", "down_seq": "EETLMNTRREENLIKKCDHT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser611" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38274-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38274-1.618.618", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.614.614", "start_pos": 614, "end_pos": 614, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "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": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "NIFLSTLPNDSTVRLKFSEE", "down_seq": "LMNTRREENLIKKCDHTPNM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr614" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38274-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38274-1.618.618", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38274-1.618.618", "start_pos": 618, "end_pos": 618, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "STLPNDSTVRLKFSEETLMN", "down_seq": "RREENLIKKCDHTPNMTSWS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr618" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38274-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38274-1.614.614", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.702.702", "start_pos": 702, "end_pos": 702, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "YLMLSNYTSAVTAASMTIPR", "down_seq": "IVTDDTKTLAHNRHYSATTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "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": "Ser702" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38274-1.705.705", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38274-1.708.708", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38274-1.718.718", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38274-1.720.720", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.705.705", "start_pos": 705, "end_pos": 705, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "LSNYTSAVTAASMTIPRSIV", "down_seq": "DDTKTLAHNRHYSATTNQKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr705" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38274-1.702.702", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38274-1.708.708", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38274-1.718.718", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38274-1.720.720", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.708.708", "start_pos": 708, "end_pos": 708, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "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": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "YTSAVTAASMTIPRSIVTDD", "down_seq": "KTLAHNRHYSATTNQKLDNQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "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": "Thr708" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38274-1.702.702", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38274-1.705.705", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38274-1.718.718", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38274-1.720.720", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.718.718", "start_pos": 718, "end_pos": 718, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "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": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "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": "TIPRSIVTDDTKTLAHNRHY", "down_seq": "ATTNQKLDNQIDLDQDIENE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "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": "Ser718" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38274-1.702.702", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38274-1.705.705", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38274-1.708.708", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38274-1.720.720", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.720.720", "start_pos": 720, "end_pos": 720, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "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": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "PRSIVTDDTKTLAHNRHYSA", "down_seq": "TNQKLDNQIDLDQDIENEEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr720" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38274-1.702.702", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38274-1.705.705", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38274-1.708.708", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38274-1.718.718", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.753.753", "start_pos": 753, "end_pos": 753, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dynamic localization of the Swe1 regulator Hsl7 during the Saccharomyces cerevisiae cell cycle.", "journal": "Molecular biology of the cell", "date": "2001-06", "authors": "Cid V J, Shulewitz M J, McDonald K L, Thorner J", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "11408575", "url": "https://glygen.org/publication/PubMed/11408575" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11408575", "url": "https://glygen.org/publication/PubMed/11408575", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "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": "QDIENEEEQGFLSNLETGWQ", "down_seq": "VQDIHGLSETAKPDHLDSIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "11408575", "url": "https://glygen.org/publication/PubMed/11408575" }, { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser753" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P38274-1.761.761", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38274-1.771.771", "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": "P38274-1.761.761", "start_pos": 761, "end_pos": 761, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "QGFLSNLETGWQSVQDIHGL", "down_seq": "ETAKPDHLDSINKPMFDLKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser761" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38274-1.753.753", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38274-1.771.771", "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": "P38274-1.771.771", "start_pos": 771, "end_pos": 771, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "WQSVQDIHGLSETAKPDHLD", "down_seq": "INKPMFDLKSTKALEPSNEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser771" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38274-1.753.753", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38274-1.761.761", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38274-1.788.788", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38274-1.788.788", "start_pos": 788, "end_pos": 788, "uniprot_canonical_ac": "P38274-1", "length": 827, "uniprot_id": "HSL7_YEAST", "protein_name": "Protein arginine N-methyltransferase HSL7", "refseq_ac": "NP_009691", "refseq_name": "protein arginine N-methyltransferase", "gene_name": "HSL7", "gene_names_uniprotkb": "HSL7; YBR1008", "gene_names_refseq": "HSL7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38274", "url": "https://www.uniprot.org/uniprotkb/P38274" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274", "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": "HLDSINKPMFDLKSTKALEP", "down_seq": "NELPRHEDLEEDVPEVHVRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000337", "url": "https://www.yeastgenome.org/locus/S000000337" }, { "database": "iPTMnet", "id": "P38274", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38274" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser788" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "702", "end_pos": "702" }, { "start_pos": "705", "end_pos": "705" }, { "start_pos": "708", "end_pos": "708" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "720", "end_pos": "720" }, { "start_pos": "753", "end_pos": "753" }, { "start_pos": "761", "end_pos": "761" }, { "start_pos": "771", "end_pos": "771" }, { "start_pos": "788", "end_pos": "788" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38274-1.771.771", "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": "P38287-1.247.247", "start_pos": 247, "end_pos": 247, "uniprot_canonical_ac": "P38287-1", "length": 376, "uniprot_id": "CSH1_YEAST", "protein_name": "Mannosyl phosphorylinositol ceramide synthase CSH1", "refseq_ac": "NP_009719", "refseq_name": "mannosylinositol phosphorylceramide synthase catalytic subunit CSH1", "gene_name": "CSH1", "gene_names_uniprotkb": "CSH1; YBR1212", "gene_names_refseq": "CSH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38287", "url": "https://www.uniprot.org/uniprotkb/P38287" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Pleiotropic roles of N-glycans for enzyme activities and stabilities of MIPC synthases, Csh1 and Sur1/Csg1, in Saccharomyces cerevisiae.", "journal": "Glycobiology", "date": "2022-08-18", "authors": "Uemura Satoshi, Moriguchi Takashi", "evidence": [ { "database": "PubMed", "id": "35713525", "url": "https://glygen.org/publication/PubMed/35713525" } ], "reference": [ { "type": "PubMed", "id": "35713525", "url": "https://glygen.org/publication/PubMed/35713525" } ] } ], "crossref": [ { "id": "35713525", "url": "https://glygen.org/publication/PubMed/35713525", "database": "PubMed", "categories": [ "Other" ] }, { "id": "", "url": "https://data.glygen.org/", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SNTAENGAVRILQPADYKMH", "down_seq": "NSFFSISKGSSWHTGDANFM", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "automatic_literature_mining", "site_category_dict": { "automatic_literature_mining": true }, "site_seq": "N", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn247", "evidence": [ { "id": "35713525", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/35713525" }, { "id": "", "database": "GlyGen", "url": "https://data.glygen.org/" } ], "mining_tool": "GlycoSiteMiner_1.0", "mining_tool_list": [ { "label": "GlycoSiteMiner_1.0" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" }, { "start_pos": "51", "end_pos": "51" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "354", "end_pos": "354" } ] } ], "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", "mining_tool" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "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", "mining_tool" ] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38287-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "P38287-1", "length": 376, "uniprot_id": "CSH1_YEAST", "protein_name": "Mannosyl phosphorylinositol ceramide synthase CSH1", "refseq_ac": "NP_009719", "refseq_name": "mannosylinositol phosphorylceramide synthase catalytic subunit CSH1", "gene_name": "CSH1", "gene_names_uniprotkb": "CSH1; YBR1212", "gene_names_refseq": "CSH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38287", "url": "https://www.uniprot.org/uniprotkb/P38287" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Pleiotropic roles of N-glycans for enzyme activities and stabilities of MIPC synthases, Csh1 and Sur1/Csg1, in Saccharomyces cerevisiae.", "journal": "Glycobiology", "date": "2022-08-18", "authors": "Uemura Satoshi, Moriguchi Takashi", "evidence": [ { "database": "PubMed", "id": "35713525", "url": "https://glygen.org/publication/PubMed/35713525" } ], "reference": [ { "type": "PubMed", "id": "35713525", "url": "https://glygen.org/publication/PubMed/35713525" } ] } ], "crossref": [ { "id": "35713525", "url": "https://glygen.org/publication/PubMed/35713525", "database": "PubMed", "categories": [ "Other" ] }, { "id": "", "url": "https://data.glygen.org/", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "IDDTSKDALTDEQLNPPNGF", "down_seq": "STFYESPPQLIPKIIHQTYK", "glycosylation": [ { "glytoucan_ac": "", "type": "N-linked", "subtype": "", "prediction_tool_list": [], "site_category": "automatic_literature_mining", "site_category_dict": { "automatic_literature_mining": true }, "site_seq": "N", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Asn", "end_aa": "Asn", "residue": "Asn", "site_lbl": "Asn51", "evidence": [ { "id": "35713525", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/35713525" }, { "id": "", "database": "GlyGen", "url": "https://data.glygen.org/" } ], "mining_tool": "GlycoSiteMiner_1.0", "mining_tool_list": [ { "label": "GlycoSiteMiner_1.0" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" }, { "start_pos": "51", "end_pos": "51" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "354", "end_pos": "354" } ] } ], "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", "mining_tool" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "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", "mining_tool" ] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38287-1.354.354", "start_pos": 354, "end_pos": 354, "uniprot_canonical_ac": "P38287-1", "length": 376, "uniprot_id": "CSH1_YEAST", "protein_name": "Mannosyl phosphorylinositol ceramide synthase CSH1", "refseq_ac": "NP_009719", "refseq_name": "mannosylinositol phosphorylceramide synthase catalytic subunit CSH1", "gene_name": "CSH1", "gene_names_uniprotkb": "CSH1; YBR1212", "gene_names_refseq": "CSH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38287", "url": "https://www.uniprot.org/uniprotkb/P38287" } ], "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": "P38287", "url": "https://www.uniprot.org/uniprotkb/P38287" }, { "database": "iPTMnet", "id": "P38287", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38287" } ], "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": "P38287", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38287" } ], "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": "P38287", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38287" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38287", "url": "https://www.uniprot.org/uniprotkb/P38287", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38287", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38287", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000365", "url": "https://www.yeastgenome.org/locus/S000000365", "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": "KRRNPTRHEYNSRGKRLRKD", "down_seq": "NIPYDSVFLDIEKNHAKFTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38287", "url": "https://www.uniprot.org/uniprotkb/P38287" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38287", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38287" }, { "database": "SGD", "id": "S000000365", "url": "https://www.yeastgenome.org/locus/S000000365" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser354" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "247", "end_pos": "247" }, { "start_pos": "51", "end_pos": "51" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "354", "end_pos": "354" } ] } ], "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": "P38297-1.172.172", "start_pos": 172, "end_pos": 172, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "NGFNIEKKALSKLFHSQIVS", "down_seq": "TNHLNALKKRVDDVSSKVFI", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "P", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "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": "P38297-1.195.195", "start_pos": 195, "end_pos": 195, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Ugo1 and Mdm30 act sequentially during Fzo1-mediated mitochondrial outer membrane fusion.", "journal": "Journal of cell science", "date": "2011-04-01", "authors": "Anton Fabian, Fres Julia M, Schauss Astrid, Pinson Beno\u00eet, Praefcke Gerrit J K, Langer Thomas, Escobar-Henriques Mafalda", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "HLNALKKRVDDVSSKVFITG", "down_seq": "VNTGKSALCNSLLKQRLLPE", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38297-1.196.196", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38297-1.197.197", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38297-1.200.200", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38297-1.201.201", "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": "P38297-1.196.196", "start_pos": 196, "end_pos": 196, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A mutation associated with CMT2A neuropathy causes defects in Fzo1 GTP hydrolysis, ubiquitylation, and protein turnover.", "journal": "Molecular biology of the cell", "date": "2009-12", "authors": "Amiott Elizabeth A, Cohen Mickael M, Saint-Georges Yann, Weissman Allan M, Shaw Janet M", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "19812251", "url": "https://glygen.org/publication/PubMed/19812251" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19812251", "url": "https://glygen.org/publication/PubMed/19812251", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "LNALKKRVDDVSSKVFITGD", "down_seq": "NTGKSALCNSLLKQRLLPED", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "M", "comment": "Leads to an unusual intermediate mitochondrial morphology described as disorganized tubules in which mitochondria are tubular, distorted, less branched, and poorly distributed throughout the cell.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "19812251", "url": "https://glygen.org/publication/PubMed/19812251" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38297-1.195.195", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38297-1.197.197", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38297-1.200.200", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38297-1.201.201", "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": "P38297-1.197.197", "start_pos": 197, "end_pos": 197, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Ugo1 and Mdm30 act sequentially during Fzo1-mediated mitochondrial outer membrane fusion.", "journal": "Journal of cell science", "date": "2011-04-01", "authors": "Anton Fabian, Fres Julia M, Schauss Astrid, Pinson Beno\u00eet, Praefcke Gerrit J K, Langer Thomas, Escobar-Henriques Mafalda", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "NALKKRVDDVSSKVFITGDV", "down_seq": "TGKSALCNSLLKQRLLPEDQ", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "A", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38297-1.195.195", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38297-1.196.196", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38297-1.200.200", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38297-1.201.201", "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": "P38297-1.200.200", "start_pos": 200, "end_pos": 200, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] }, { "title": "Sequential requirements for the GTPase domain of the mitofusin Fzo1 and the ubiquitin ligase SCFMdm30 in mitochondrial outer membrane fusion.", "journal": "Journal of cell science", "date": "2011-05-01", "authors": "Cohen Mickael M, Amiott Elizabeth A, Day Adam R, Leboucher Guillaume P, Pryce Erin N, Glickman Michael H, McCaffery J Michael, Shaw Janet M, Weissman Allan M", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "21502136", "url": "https://glygen.org/publication/PubMed/21502136" } ] }, { "title": "Ugo1 and Mdm30 act sequentially during Fzo1-mediated mitochondrial outer membrane fusion.", "journal": "Journal of cell science", "date": "2011-04-01", "authors": "Anton Fabian, Fres Julia M, Schauss Astrid, Pinson Beno\u00eet, Praefcke Gerrit J K, Langer Thomas, Escobar-Henriques Mafalda", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" } ] }, { "title": "Mitochondrial fusion in yeast requires the transmembrane GTPase Fzo1p.", "journal": "The Journal of cell biology", "date": "1998-10-19", "authors": "Hermann G J, Thatcher J W, Mills J P, Hales K G, Fuller M T, Nunnari J, Shaw J M", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948" } ] }, { "title": "A membrane-inserted structural model of the yeast mitofusin Fzo1.", "journal": "Scientific reports", "date": "2017-08-31", "authors": "De Vecchis Dario, Cavellini Laetitia, Baaden Marc, H\u00e9nin J\u00e9r\u00f4me, Cohen Micka\u00ebl M, Taly Antoine", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21502136", "url": "https://glygen.org/publication/PubMed/21502136", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840", "database": "PubMed", "categories": [ "Other" ] }, { "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948", "database": "PubMed", "categories": [ "Other" ] }, { "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "KKRVDDVSSKVFITGDVNTG", "down_seq": "SALCNSLLKQRLLPEDQLPC", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Abolishes fusion function, MDM30-binding and MDM30-dependent ubiquitination. No effect on localization or interaction with UGO1.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" }, { "database": "PubMed", "id": "21502136", "url": "https://glygen.org/publication/PubMed/21502136" }, { "database": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" }, { "database": "PubMed", "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "sequence_org": "K", "sequence_mut": "D", "comment": "Abolishes respiratory growth.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "sequence_org": "K", "sequence_mut": "R", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38297-1.195.195", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38297-1.196.196", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38297-1.197.197", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38297-1.201.201", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.201.201", "start_pos": 201, "end_pos": 201, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] }, { "title": "Sequential requirements for the GTPase domain of the mitofusin Fzo1 and the ubiquitin ligase SCFMdm30 in mitochondrial outer membrane fusion.", "journal": "Journal of cell science", "date": "2011-05-01", "authors": "Cohen Mickael M, Amiott Elizabeth A, Day Adam R, Leboucher Guillaume P, Pryce Erin N, Glickman Michael H, McCaffery J Michael, Shaw Janet M, Weissman Allan M", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "21502136", "url": "https://glygen.org/publication/PubMed/21502136" } ] }, { "title": "Ugo1 and Mdm30 act sequentially during Fzo1-mediated mitochondrial outer membrane fusion.", "journal": "Journal of cell science", "date": "2011-04-01", "authors": "Anton Fabian, Fres Julia M, Schauss Astrid, Pinson Beno\u00eet, Praefcke Gerrit J K, Langer Thomas, Escobar-Henriques Mafalda", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" } ] }, { "title": "Mitochondrial fusion in yeast requires the transmembrane GTPase Fzo1p.", "journal": "The Journal of cell biology", "date": "1998-10-19", "authors": "Hermann G J, Thatcher J W, Mills J P, Hales K G, Fuller M T, Nunnari J, Shaw J M", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21502136", "url": "https://glygen.org/publication/PubMed/21502136", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840", "database": "PubMed", "categories": [ "Other" ] }, { "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KRVDDVSSKVFITGDVNTGK", "down_seq": "ALCNSLLKQRLLPEDQLPCT", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "N", "comment": "Abolishes fusion function, MDM30-binding and MDM30-dependent ubiquitination, but not localization to mitochondrial outer membrane.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" }, { "database": "PubMed", "id": "21502136", "url": "https://glygen.org/publication/PubMed/21502136" }, { "database": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" }, { "database": "PubMed", "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38297-1.195.195", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38297-1.196.196", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38297-1.197.197", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38297-1.200.200", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38297-1.221.221", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.221.221", "start_pos": 221, "end_pos": 221, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] }, { "title": "Sequential requirements for the GTPase domain of the mitofusin Fzo1 and the ubiquitin ligase SCFMdm30 in mitochondrial outer membrane fusion.", "journal": "Journal of cell science", "date": "2011-05-01", "authors": "Cohen Mickael M, Amiott Elizabeth A, Day Adam R, Leboucher Guillaume P, Pryce Erin N, Glickman Michael H, McCaffery J Michael, Shaw Janet M, Weissman Allan M", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "21502136", "url": "https://glygen.org/publication/PubMed/21502136" } ] }, { "title": "Ugo1 and Mdm30 act sequentially during Fzo1-mediated mitochondrial outer membrane fusion.", "journal": "Journal of cell science", "date": "2011-04-01", "authors": "Anton Fabian, Fres Julia M, Schauss Astrid, Pinson Beno\u00eet, Praefcke Gerrit J K, Langer Thomas, Escobar-Henriques Mafalda", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" } ] }, { "title": "Mitochondrial fusion in yeast requires the transmembrane GTPase Fzo1p.", "journal": "The Journal of cell biology", "date": "1998-10-19", "authors": "Hermann G J, Thatcher J W, Mills J P, Hales K G, Fuller M T, Nunnari J, Shaw J M", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21502136", "url": "https://glygen.org/publication/PubMed/21502136", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840", "database": "PubMed", "categories": [ "Other" ] }, { "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SALCNSLLKQRLLPEDQLPC", "down_seq": "NVFSEILEARENDGIEEVHA", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "Abolishes fusion function, MDM30-binding and MDM30-dependent ubiquitination, but not localization to mitochondrial outer membrane.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" }, { "database": "PubMed", "id": "21502136", "url": "https://glygen.org/publication/PubMed/21502136" }, { "database": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" }, { "database": "PubMed", "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38297-1.201.201", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.313.313", "start_pos": 313, "end_pos": 313, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A membrane-inserted structural model of the yeast mitofusin Fzo1.", "journal": "Scientific reports", "date": "2017-08-31", "authors": "De Vecchis Dario, Cavellini Laetitia, Baaden Marc, H\u00e9nin J\u00e9r\u00f4me, Cohen Micka\u00ebl M, Taly Antoine", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "DKRPASTSLLRNGTVDISLI", "down_seq": "SPGLNMDSLQTAEVMSRQEE", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "K", "comment": "Abolishes respiratory growth.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38297-1.320.320", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38297-1.327.327", "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": "P38297-1.320.320", "start_pos": 320, "end_pos": 320, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Ugo1 and Mdm30 act sequentially during Fzo1-mediated mitochondrial outer membrane fusion.", "journal": "Journal of cell science", "date": "2011-04-01", "authors": "Anton Fabian, Fres Julia M, Schauss Astrid, Pinson Beno\u00eet, Praefcke Gerrit J K, Langer Thomas, Escobar-Henriques Mafalda", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "SLLRNGTVDISLIDSPGLNM", "down_seq": "SLQTAEVMSRQEEIDLVIFV", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Loss of mitochondrial fusion.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "21385840", "url": "https://glygen.org/publication/PubMed/21385840" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38297-1.313.313", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38297-1.327.327", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38297-1.335.335", "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": "P38297-1.327.327", "start_pos": 327, "end_pos": 327, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A mutation associated with CMT2A neuropathy causes defects in Fzo1 GTP hydrolysis, ubiquitylation, and protein turnover.", "journal": "Molecular biology of the cell", "date": "2009-12", "authors": "Amiott Elizabeth A, Cohen Mickael M, Saint-Georges Yann, Weissman Allan M, Shaw Janet M", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "19812251", "url": "https://glygen.org/publication/PubMed/19812251" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19812251", "url": "https://glygen.org/publication/PubMed/19812251", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "VDISLIDSPGLNMDSLQTAE", "down_seq": "MSRQEEIDLVIFVVNAENQL", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "T", "comment": "Impairs GTPHydrolysis and abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "19812251", "url": "https://glygen.org/publication/PubMed/19812251" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38297-1.313.313", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38297-1.320.320", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38297-1.335.335", "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": "P38297-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A membrane-inserted structural model of the yeast mitofusin Fzo1.", "journal": "Scientific reports", "date": "2017-08-31", "authors": "De Vecchis Dario, Cavellini Laetitia, Baaden Marc, H\u00e9nin J\u00e9r\u00f4me, Cohen Micka\u00ebl M, Taly Antoine", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "PGLNMDSLQTAEVMSRQEEI", "down_seq": "LVIFVVNAENQLTLSAKEFI", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "K", "comment": "Abolishes respiratory growth. Restores respiratory growth; when associated with D-464.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38297-1.320.320", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38297-1.327.327", "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": "P38297-1.371.371", "start_pos": 371, "end_pos": 371, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mitochondrial fusion in yeast requires the transmembrane GTPase Fzo1p.", "journal": "The Journal of cell biology", "date": "1998-10-19", "authors": "Hermann G J, Thatcher J W, Mills J P, Hales K G, Fuller M T, Nunnari J, Shaw J M", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "AKEFISLASREKKLMFFVVK", "down_seq": "FDKIRDKQRCKELILKQIRD", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "9786948", "url": "https://glygen.org/publication/PubMed/9786948" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "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": "P38297-1.398.398", "start_pos": 398, "end_pos": 398, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Two deubiquitylases act on mitofusin and regulate mitochondrial fusion along independent pathways.", "journal": "Molecular cell", "date": "2013-02-07", "authors": "Anton Fabian, Dittmar Gunnar, Langer Thomas, Escobar-Henriques Mafalda", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "23317502", "url": "https://glygen.org/publication/PubMed/23317502" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "23317502", "url": "https://glygen.org/publication/PubMed/23317502", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "KQRCKELILKQIRDLSPETY", "down_seq": "RAADFVHFVSKNGDELPHYH", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "R", "comment": "Leads to accelerated proteolysis.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "23317502", "url": "https://glygen.org/publication/PubMed/23317502" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38297-1.393.393", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.464.464", "start_pos": 464, "end_pos": 464, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A membrane-inserted structural model of the yeast mitofusin Fzo1.", "journal": "Scientific reports", "date": "2017-08-31", "authors": "De Vecchis Dario, Cavellini Laetitia, Baaden Marc, H\u00e9nin J\u00e9r\u00f4me, Cohen Micka\u00ebl M, Taly Antoine", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "title": "Two deubiquitylases act on mitofusin and regulate mitochondrial fusion along independent pathways.", "journal": "Molecular cell", "date": "2013-02-07", "authors": "Anton Fabian, Dittmar Gunnar, Langer Thomas, Escobar-Henriques Mafalda", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "23317502", "url": "https://glygen.org/publication/PubMed/23317502" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23317502", "url": "https://glygen.org/publication/PubMed/23317502", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "DFDSLEDSLRNFVLKKRSLS", "down_seq": "LLPAKTYLSKLLSDIIMISK", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "D", "comment": "Abolishes respiratory growth. Restores respiratory growth; when associated with K-335.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "sequence_org": "K", "sequence_mut": "R", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "23317502", "url": "https://glygen.org/publication/PubMed/23317502" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.490.490", "start_pos": 490, "end_pos": 490, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A membrane-inserted structural model of the yeast mitofusin Fzo1.", "journal": "Scientific reports", "date": "2017-08-31", "authors": "De Vecchis Dario, Cavellini Laetitia, Baaden Marc, H\u00e9nin J\u00e9r\u00f4me, Cohen Micka\u00ebl M, Taly Antoine", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "TYLSKLLSDIIMISKSNMKM", "down_seq": "SEEEIKINEQLETLRPEILS", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "sequence_org": "Y", "sequence_mut": "K", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "sequence_org": "Y", "sequence_mut": "P", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P38297-1.501.501", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38297-1.504.504", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.501.501", "start_pos": 501, "end_pos": 501, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "MISKSNMKMYSEEEIKINEQ", "down_seq": "ETLRPEILSARAKCNDLTTS", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "A", "comment": "Abolishes fusion function; when associated with Ala-504.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38297-1.490.490", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38297-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38297-1.518.518", "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": "P38297-1.504.504", "start_pos": 504, "end_pos": 504, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "KSNMKMYSEEEIKINEQLET", "down_seq": "RPEILSARAKCNDLTTSVDQ", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "A", "comment": "Abolishes fusion function; when associated with Ala-501.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38297-1.490.490", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38297-1.501.501", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38297-1.518.518", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38297-1.523.523", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.518.518", "start_pos": 518, "end_pos": 518, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "NEQLETLRPEILSARAKCND", "down_seq": "TTSVDQMAEQTITMTYNNTK", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "P", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38297-1.501.501", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38297-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38297-1.523.523", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38297-1.538.538", "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": "P38297-1.523.523", "start_pos": 523, "end_pos": 523, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A membrane-inserted structural model of the yeast mitofusin Fzo1.", "journal": "Scientific reports", "date": "2017-08-31", "authors": "De Vecchis Dario, Cavellini Laetitia, Baaden Marc, H\u00e9nin J\u00e9r\u00f4me, Cohen Micka\u00ebl M, Taly Antoine", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "TLRPEILSARAKCNDLTTSV", "down_seq": "QMAEQTITMTYNNTKEALLN", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "H", "comment": "Abolishes respiratory growth. Restores respiratory growth; when associated with D-780.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38297-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38297-1.518.518", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38297-1.538.538", "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": "P38297-1.538.538", "start_pos": 538, "end_pos": 538, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "LTTSVDQMAEQTITMTYNNT", "down_seq": "EALLNALDVPLHEYPKYQGL", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "P", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38297-1.518.518", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38297-1.523.523", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.769.769", "start_pos": 769, "end_pos": 769, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "GLTYLIHDLPRALPMNLSIK", "down_seq": "KRKLQELDYIHLNAQRTSNE", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "P", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38297-1.773.773", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38297-1.780.780", "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": "P38297-1.773.773", "start_pos": 773, "end_pos": 773, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "LIHDLPRALPMNLSIKYKRK", "down_seq": "QELDYIHLNAQRTSNEVRDV", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "P", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38297-1.769.769", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38297-1.780.780", "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": "P38297-1.780.780", "start_pos": 780, "end_pos": 780, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A membrane-inserted structural model of the yeast mitofusin Fzo1.", "journal": "Scientific reports", "date": "2017-08-31", "authors": "De Vecchis Dario, Cavellini Laetitia, Baaden Marc, H\u00e9nin J\u00e9r\u00f4me, Cohen Micka\u00ebl M, Taly Antoine", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "ALPMNLSIKYKRKLQELDYI", "down_seq": "LNAQRTSNEVRDVLRVPTRE", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "D", "comment": "No effect. Restores respiratory growth; when associated with H-523.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38297-1.769.769", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38297-1.773.773", "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": "P38297-1.818.818", "start_pos": 818, "end_pos": 818, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A membrane-inserted structural model of the yeast mitofusin Fzo1.", "journal": "Scientific reports", "date": "2017-08-31", "authors": "De Vecchis Dario, Cavellini Laetitia, Baaden Marc, H\u00e9nin J\u00e9r\u00f4me, Cohen Micka\u00ebl M, Taly Antoine", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "TREILRSCEIIMDKKQITKK", "down_seq": "LENKKESNLLSIKFFQSLYE", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "sequence_org": "E", "sequence_mut": "P", "comment": "Abolishes respiratory growth.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "sequence_org": "E", "sequence_mut": "R", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38297-1.819.819", "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": "P38297-1.819.819", "start_pos": 819, "end_pos": 819, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A membrane-inserted structural model of the yeast mitofusin Fzo1.", "journal": "Scientific reports", "date": "2017-08-31", "authors": "De Vecchis Dario, Cavellini Laetitia, Baaden Marc, H\u00e9nin J\u00e9r\u00f4me, Cohen Micka\u00ebl M, Taly Antoine", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "title": "Domain interactions within Fzo1 oligomers are essential for mitochondrial fusion.", "journal": "The Journal of biological chemistry", "date": "2006-06-16", "authors": "Griffin Erik E, Chan David C", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "reference": [ { "type": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" } ] } ], "crossref": [ { "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "REILRSCEIIMDKKQITKKE", "down_seq": "ENKKESNLLSIKFFQSLYEG", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "sequence_org": "L", "sequence_mut": "E", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] }, { "sequence_org": "L", "sequence_mut": "P", "comment": "Abolishes fusion function.", "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" }, { "database": "PubMed", "id": "16624808", "url": "https://glygen.org/publication/PubMed/16624808" }, { "database": "PubMed", "id": "28860650", "url": "https://glygen.org/publication/PubMed/28860650" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38297-1.818.818", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000383", "url": "https://www.yeastgenome.org/locus/S000000383", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297", "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": "EGKQQFKDSNKPHKDSTDQD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000383", "url": "https://www.yeastgenome.org/locus/S000000383" }, { "database": "iPTMnet", "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "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": "P38297-1.393.393", "start_pos": 393, "end_pos": 393, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000383", "url": "https://www.yeastgenome.org/locus/S000000383", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297", "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": "DKIRDKQRCKELILKQIRDL", "down_seq": "PETYKRAADFVHFVSKNGDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000383", "url": "https://www.yeastgenome.org/locus/S000000383" }, { "database": "iPTMnet", "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser393" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38297-1.398.398", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.436.436", "start_pos": 436, "end_pos": 436, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "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": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "HYHNENDNEDHGDRKPDDDP", "down_seq": "SSSDPDPDFDSLEDSLRNFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Tyr436" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38297-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38297-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38297-1.439.439", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.437.437", "start_pos": 437, "end_pos": 437, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "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": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297", "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": "YHNENDNEDHGDRKPDDDPY", "down_seq": "SSDPDPDFDSLEDSLRNFVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Ser437" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38297-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38297-1.438.438", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38297-1.439.439", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.438.438", "start_pos": 438, "end_pos": 438, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "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": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297", "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": "HNENDNEDHGDRKPDDDPYS", "down_seq": "SDPDPDFDSLEDSLRNFVLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Ser438" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38297-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38297-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38297-1.439.439", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.439.439", "start_pos": 439, "end_pos": 439, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "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": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297", "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": "NENDNEDHGDRKPDDDPYSS", "down_seq": "DPDPDFDSLEDSLRNFVLKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Ser439" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38297-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38297-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38297-1.438.438", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38297-1.78.78", "start_pos": 78, "end_pos": 78, "uniprot_canonical_ac": "P38297-1", "length": 855, "uniprot_id": "FZO1_YEAST", "protein_name": "Mitofusin FZO1", "refseq_ac": "NP_009738", "refseq_name": "mitofusin", "gene_name": "FZO1", "gene_names_uniprotkb": "FZO1; YBR1241", "gene_names_refseq": "FZO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38297", "url": "https://www.uniprot.org/uniprotkb/P38297" } ], "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": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000383", "url": "https://www.yeastgenome.org/locus/S000000383", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297", "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": "FDGEEGRREDDLLPSLRSSN", "down_seq": "KAHLISSQLSQWNYNNNRVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000383", "url": "https://www.yeastgenome.org/locus/S000000383" }, { "database": "iPTMnet", "id": "P38297", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38297" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser78" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "172", "end_pos": "172" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "819", "end_pos": "819" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "78", "end_pos": "78" } ] } ], "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": "P38302-1.139.139", "start_pos": 139, "end_pos": 139, "uniprot_canonical_ac": "P38302-1", "length": 140, "uniprot_id": "NTC20_YEAST", "protein_name": "Pre-mRNA-splicing factor NTC20", "refseq_ac": "NP_009747", "refseq_name": "Ntc20p", "gene_name": "NTC20", "gene_names_uniprotkb": "NTC20; SNT384; YBR1316", "gene_names_refseq": "NTC20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38302", "url": "https://www.uniprot.org/uniprotkb/P38302" } ], "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": "P38302", "url": "https://www.uniprot.org/uniprotkb/P38302" }, { "database": "iPTMnet", "id": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" } ], "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": "P38302", "url": "https://www.uniprot.org/uniprotkb/P38302" }, { "database": "iPTMnet", "id": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" } ], "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": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" } ], "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": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" } ], "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": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" } ], "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": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" } ], "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": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" } ], "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": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" } ], "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": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38302", "url": "https://www.uniprot.org/uniprotkb/P38302", "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": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302", "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": "S000000392", "url": "https://www.yeastgenome.org/locus/S000000392", "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": "KIKGIIRKRVLQEPDRDNDD", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38302", "url": "https://www.uniprot.org/uniprotkb/P38302" }, { "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": "P38302", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38302" }, { "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": "SGD", "id": "S000000392", "url": "https://www.yeastgenome.org/locus/S000000392" }, { "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": "Ser139" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] } ], "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": "P38310-1.116.116", "start_pos": 116, "end_pos": 116, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411", "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": "VEEEEEIYEYSNELRDQDRE", "down_seq": "DEHTADNVKLYQKLKIQILA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411" }, { "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": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "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": "P38310-1.285.285", "start_pos": 285, "end_pos": 285, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "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": "LSMVLATAISTVFGIFFFRY", "down_seq": "SSLSLKICLVVATCFLYLIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Ser285" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38310-1.287.287", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38310-1.287.287", "start_pos": 287, "end_pos": 287, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "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": "MVLATAISTVFGIFFFRYSS", "down_seq": "LSLKICLVVATCFLYLIAAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Ser287" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38310-1.285.285", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38310-1.421.421", "start_pos": 421, "end_pos": 421, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "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": "YGYIPYLPISWQKKRIMKRL", "down_seq": "IAKASLDLKHHTSELNSSTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser421" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P38310-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38310-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38310-1.441.441", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38310-1.439.439", "start_pos": 439, "end_pos": 439, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "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": "RLSIAKASLDLKHHTSELNS", "down_seq": "TSEPDSQRRSKDSSVPLIID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser439" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38310-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38310-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38310-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38310-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38310-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38310-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38310-1.453.453", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38310-1.440.440", "start_pos": 440, "end_pos": 440, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "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": "LSIAKASLDLKHHTSELNSS", "down_seq": "SEPDSQRRSKDSSVPLIIDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr440" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38310-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38310-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38310-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38310-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38310-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38310-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38310-1.453.453", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38310-1.441.441", "start_pos": 441, "end_pos": 441, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "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": "SIAKASLDLKHHTSELNSST", "down_seq": "EPDSQRRSKDSSVPLIIDSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser441" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38310-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38310-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38310-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38310-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38310-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38310-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38310-1.453.453", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38310-1.445.445", "start_pos": 445, "end_pos": 445, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "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": "ASLDLKHHTSELNSSTSEPD", "down_seq": "QRRSKDSSVPLIIDSSGSAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser445" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38310-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38310-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38310-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38310-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38310-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38310-1.453.453", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38310-1.463.463", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38310-1.449.449", "start_pos": 449, "end_pos": 449, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "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": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310", "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": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "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": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411", "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": "LKHHTSELNSSTSEPDSQRR", "down_seq": "KDSSVPLIIDSSGSAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "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": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411" }, { "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": "Ser449" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38310-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38310-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38310-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38310-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38310-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38310-1.453.453", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38310-1.463.463", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38310-1.452.452", "start_pos": 452, "end_pos": 452, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "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": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "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": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411", "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": "HTSELNSSTSEPDSQRRSKD", "down_seq": "SVPLIIDSSGSAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "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": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser452" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38310-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38310-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38310-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38310-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38310-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38310-1.453.453", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38310-1.463.463", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38310-1.453.453", "start_pos": 453, "end_pos": 453, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "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": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411", "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": "TSELNSSTSEPDSQRRSKDS", "down_seq": "VPLIIDSSGSAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "database": "SGD", "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411" }, { "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": "Ser453" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38310-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38310-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38310-1.441.441", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38310-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38310-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38310-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38310-1.463.463", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38310-1.463.463", "start_pos": 463, "end_pos": 463, "uniprot_canonical_ac": "P38310-1", "length": 465, "uniprot_id": "FTH1_YEAST", "protein_name": "Iron transporter FTH1", "refseq_ac": "NP_009766", "refseq_name": "Fth1p", "gene_name": "FTH1", "gene_names_uniprotkb": "FTH1; YBR1446", "gene_names_refseq": "FTH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38310", "url": "https://www.uniprot.org/uniprotkb/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "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": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310", "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": "PDSQRRSKDSSVPLIIDSSG", "down_seq": "AN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000411", "url": "https://www.yeastgenome.org/locus/S000000411" }, { "database": "iPTMnet", "id": "P38310", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38310" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser463" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "463", "end_pos": "463" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38310-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38310-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38310-1.452.452", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38310-1.453.453", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38328-1.10.10", "start_pos": 10, "end_pos": 10, "uniprot_canonical_ac": "P38328-1", "length": 384, "uniprot_id": "ARPC1_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 1", "refseq_ac": "NP_009793", "refseq_name": "Arc40p", "gene_name": "ARC40", "gene_names_uniprotkb": "ARC40; YBR1532", "gene_names_refseq": "ARC40", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38328", "url": "https://www.uniprot.org/uniprotkb/P38328" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000438", "url": "https://www.yeastgenome.org/locus/S000000438", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328", "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": "MSFSNSKDK", "down_seq": "VVAVYKLVKAPIYSHCFSQD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000438", "url": "https://www.yeastgenome.org/locus/S000000438" }, { "database": "iPTMnet", "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser10" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38328-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38328-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38328-1.6.6", "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": "P38328-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P38328-1", "length": 384, "uniprot_id": "ARPC1_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 1", "refseq_ac": "NP_009793", "refseq_name": "Arc40p", "gene_name": "ARC40", "gene_names_uniprotkb": "ARC40; YBR1532", "gene_names_refseq": "ARC40", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38328", "url": "https://www.uniprot.org/uniprotkb/P38328" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000438", "url": "https://www.yeastgenome.org/locus/S000000438", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328", "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": "FSNSKDKSVVAVYKLVKAPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000438", "url": "https://www.yeastgenome.org/locus/S000000438" }, { "database": "iPTMnet", "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38328-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38328-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38328-1.10.10", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38328-1.323.323", "start_pos": 323, "end_pos": 323, "uniprot_canonical_ac": "P38328-1", "length": 384, "uniprot_id": "ARPC1_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 1", "refseq_ac": "NP_009793", "refseq_name": "Arc40p", "gene_name": "ARC40", "gene_names_uniprotkb": "ARC40; YBR1532", "gene_names_refseq": "ARC40", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38328", "url": "https://www.uniprot.org/uniprotkb/P38328" } ], "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": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000438", "url": "https://www.yeastgenome.org/locus/S000000438", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328", "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": "SALTASGNTDELSGNNDESS", "down_seq": "FGISALRKFKELDLKGKVST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000438", "url": "https://www.yeastgenome.org/locus/S000000438" }, { "database": "iPTMnet", "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr323" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "4", "end_pos": "4" }, { "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": "P38328-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P38328-1", "length": 384, "uniprot_id": "ARPC1_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 1", "refseq_ac": "NP_009793", "refseq_name": "Arc40p", "gene_name": "ARC40", "gene_names_uniprotkb": "ARC40; YBR1532", "gene_names_refseq": "ARC40", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38328", "url": "https://www.uniprot.org/uniprotkb/P38328" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000438", "url": "https://www.yeastgenome.org/locus/S000000438", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328", "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": "MSF", "down_seq": "NSKDKSVVAVYKLVKAPIYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000438", "url": "https://www.yeastgenome.org/locus/S000000438" }, { "database": "iPTMnet", "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38328-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38328-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38328-1.10.10", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38328-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P38328-1", "length": 384, "uniprot_id": "ARPC1_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 1", "refseq_ac": "NP_009793", "refseq_name": "Arc40p", "gene_name": "ARC40", "gene_names_uniprotkb": "ARC40; YBR1532", "gene_names_refseq": "ARC40", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38328", "url": "https://www.uniprot.org/uniprotkb/P38328" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000438", "url": "https://www.yeastgenome.org/locus/S000000438", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328", "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": "MSFSN", "down_seq": "KDKSVVAVYKLVKAPIYSHC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000438", "url": "https://www.yeastgenome.org/locus/S000000438" }, { "database": "iPTMnet", "id": "P38328", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38328" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "10", "end_pos": "10" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "6", "end_pos": "6" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38328-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38328-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38328-1.10.10", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38334-1.158.158", "start_pos": 158, "end_pos": 158, "uniprot_canonical_ac": "P38334-1", "length": 175, "uniprot_id": "TRS20_YEAST", "protein_name": "Trafficking protein particle complex subunit 20", "refseq_ac": "NP_009813", "refseq_name": "TRAPP subunit TRS20", "gene_name": "TRS20", "gene_names_uniprotkb": "TRS20; YBR1722", "gene_names_refseq": "TRS20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38334", "url": "https://www.uniprot.org/uniprotkb/P38334" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38334", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38334" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000458", "url": "https://www.yeastgenome.org/locus/S000000458", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38334", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38334", "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": "HELYVKTLMNPFYKITDPIR", "down_seq": "PAFDSRVRTLARKHLSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000458", "url": "https://www.yeastgenome.org/locus/S000000458" }, { "database": "iPTMnet", "id": "P38334", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38334" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser158" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "158", "end_pos": "158" } ] } ], "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": "P38426-1.148.148", "start_pos": 148, "end_pos": 148, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426", "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "STAQRPSVEEFFSAPSARVC", "down_seq": "PSQEASASSISASRSSAHHN", "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": "Ser148", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser148" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38426-1.150.150", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.154.154", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.157.157", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.159.159", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38426-1.161.161", "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": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.150.150", "start_pos": 150, "end_pos": 150, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "AQRPSVEEFFSAPSARVCSP", "down_seq": "QEASASSISASRSSAHHNDL", "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": "Ser150", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser150" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38426-1.148.148", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.154.154", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.157.157", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.159.159", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.161.161", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.154.154", "start_pos": 154, "end_pos": 154, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "SVEEFFSAPSARVCSPSQEA", "down_seq": "ASSISASRSSAHHNDLSSSL", "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": "Ser154", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser154" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38426-1.148.148", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.150.150", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.157.157", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.159.159", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.161.161", "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": "P38426-1.156.156", "start_pos": 156, "end_pos": 156, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEFFSAPSARVCSPSQEASA", "down_seq": "SISASRSSAHHNDLSSSLMK", "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": "Ser156", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38426-1.148.148", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.150.150", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.154.154", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.157.157", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.159.159", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.161.161", "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": "P38426-1.157.157", "start_pos": 157, "end_pos": 157, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "EFFSAPSARVCSPSQEASAS", "down_seq": "ISASRSSAHHNDLSSSLMKN", "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": "Ser157", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser157" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38426-1.148.148", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.150.150", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.154.154", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.159.159", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.161.161", "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": "P38426-1.159.159", "start_pos": 159, "end_pos": 159, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "FSAPSARVCSPSQEASASSI", "down_seq": "ASRSSAHHNDLSSSLMKNPN", "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": "Ser159", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser159" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38426-1.148.148", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38426-1.150.150", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.154.154", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.157.157", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.161.161", "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": "P38426-1.161.161", "start_pos": 161, "end_pos": 161, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "APSARVCSPSQEASASSISA", "down_seq": "RSSAHHNDLSSSLMKNPNLS", "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": "Ser161", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38426-1.148.148", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38426-1.150.150", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.154.154", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.156.156", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.157.157", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.159.159", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38426-1.181.181", "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": "P38426-1.195.195", "start_pos": 195, "end_pos": 195, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "MKNPNLSFDSHPPRVRSSSK", "down_seq": "AVITPVSKSVPDVDPAVVDV", "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": "Ser195", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser195" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38426-1.181.181", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38426-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.202.202", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.202.202", "start_pos": 202, "end_pos": 202, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "FDSHPPRVRSSSKSAVITPV", "down_seq": "KSVPDVDPAVVDVAKVREEF", "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": "Ser202", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser202" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38426-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38426-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38426-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38426-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.204.204", "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": "P38426-1.235.235", "start_pos": 235, "end_pos": 235, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "VAKVREEFQQQASLPSMKRV", "down_seq": "GSTAGDSSIASSSSNLRYSQ", "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": "Ser235", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser235" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38426-1.237.237", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.238.238", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.242.242", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.243.243", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38426-1.254.254", "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": "P38426-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "KVREEFQQQASLPSMKRVSG", "down_seq": "TAGDSSIASSSSNLRYSQQF", "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": "Ser237", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser237" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38426-1.235.235", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.238.238", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.242.242", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.243.243", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38426-1.254.254", "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": "P38426-1.238.238", "start_pos": 238, "end_pos": 238, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "VREEFQQQASLPSMKRVSGS", "down_seq": "AGDSSIASSSSNLRYSQQFQ", "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": "Thr238", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr238" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38426-1.235.235", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.237.237", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.242.242", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.243.243", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38426-1.254.254", "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": "P38426-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FQQQASLPSMKRVSGSTAGD", "down_seq": "SIASSSSNLRYSQQFQDNFI", "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": "Ser242", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38426-1.235.235", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.237.237", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.238.238", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.243.243", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.254.254", "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": "P38426-1.243.243", "start_pos": 243, "end_pos": 243, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "QQQASLPSMKRVSGSTAGDS", "down_seq": "IASSSSNLRYSQQFQDNFIE", "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": "Ser243", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser243" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38426-1.235.235", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.237.237", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.238.238", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.242.242", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.254.254", "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": "P38426-1.246.246", "start_pos": 246, "end_pos": 246, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "ASLPSMKRVSGSTAGDSSIA", "down_seq": "SSSNLRYSQQFQDNFIEDTD", "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": "Ser246", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser246" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38426-1.235.235", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38426-1.237.237", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.238.238", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.242.242", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.243.243", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38426-1.265.265", "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": "P38426-1.247.247", "start_pos": 247, "end_pos": 247, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "SLPSMKRVSGSTAGDSSIAS", "down_seq": "SSNLRYSQQFQDNFIEDTDS", "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": "Ser247", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser247" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38426-1.235.235", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38426-1.237.237", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38426-1.238.238", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.242.242", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.243.243", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38426-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38426-1.267.267", "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": "P38426-1.248.248", "start_pos": 248, "end_pos": 248, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "LPSMKRVSGSTAGDSSIASS", "down_seq": "SNLRYSQQFQDNFIEDTDSE", "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": "Ser248", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser248" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38426-1.235.235", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38426-1.237.237", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38426-1.238.238", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.242.242", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.243.243", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38426-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38426-1.267.267", "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": "P38426-1.249.249", "start_pos": 249, "end_pos": 249, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "PSMKRVSGSTAGDSSIASSS", "down_seq": "NLRYSQQFQDNFIEDTDSED", "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": "Ser249", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser249" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38426-1.235.235", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38426-1.237.237", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38426-1.238.238", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.242.242", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.243.243", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38426-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38426-1.267.267", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSMIKVDCNNQELSNNKQER", "down_seq": "SSVTSASSHYIGLPQEAQIN", "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": "Ser51", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" } ], "site_lbl": "Ser51" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38426-1.32.32", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.52.52", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.53.53", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.55.55", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.56.56", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.58.58", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.59.59", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38426-1.61.61", "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": "P38426-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SMIKVDCNNQELSNNKQERS", "down_seq": "SVTSASSHYIGLPQEAQING", "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": "Ser52", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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" } ], "site_lbl": "Ser52" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38426-1.32.32", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.51.51", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.53.53", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.55.55", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.56.56", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.58.58", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.59.59", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.61.61", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "MIKVDCNNQELSNNKQERSS", "down_seq": "VTSASSHYIGLPQEAQINGE", "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": "Ser53", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser53" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38426-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.51.51", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.52.52", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.55.55", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.56.56", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.58.58", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.59.59", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.61.61", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "T", "start_aa": "T", "up_seq": "KVDCNNQELSNNKQERSSSV", "down_seq": "SASSHYIGLPQEAQINGEPL", "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": "Thr55", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr55" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38426-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.51.51", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.52.52", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.53.53", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.56.56", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.58.58", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.59.59", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.61.61", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "VDCNNQELSNNKQERSSSVT", "down_seq": "ASSHYIGLPQEAQINGEPLQ", "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": "Ser56", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser56" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38426-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.51.51", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.52.52", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.53.53", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.55.55", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.58.58", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.59.59", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.61.61", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.58.58", "start_pos": 58, "end_pos": 58, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "CNNQELSNNKQERSSSVTSA", "down_seq": "SHYIGLPQEAQINGEPLQRA", "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": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser58" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38426-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.51.51", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.52.52", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.53.53", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.55.55", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.56.56", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.59.59", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.61.61", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNQELSNNKQERSSSVTSAS", "down_seq": "HYIGLPQEAQINGEPLQRAN", "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": "Ser59", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser59" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38426-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.51.51", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.52.52", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.53.53", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.55.55", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.56.56", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.58.58", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.61.61", "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": "P38426-1.973.973", "start_pos": 973, "end_pos": 973, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "KFYNSGVSPTDNSRISLSRT", "down_seq": "SSMSVGNNKKHFQNQVDFVC", "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": "Ser973", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser973" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38426-1.957.957", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38426-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38426-1.962.962", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.965.965", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.974.974", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.975.975", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.977.977", "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": "P38426-1.974.974", "start_pos": 974, "end_pos": 974, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & 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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "FYNSGVSPTDNSRISLSRTS", "down_seq": "SMSVGNNKKHFQNQVDFVCV", "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": "Ser974", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser974" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38426-1.957.957", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38426-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38426-1.962.962", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38426-1.965.965", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.973.973", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.975.975", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.977.977", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.975.975", "start_pos": 975, "end_pos": 975, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YNSGVSPTDNSRISLSRTSS", "down_seq": "MSVGNNKKHFQNQVDFVCVS", "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": "Ser975", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" } ], "site_lbl": "Ser975" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38426-1.957.957", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38426-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38426-1.962.962", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38426-1.965.965", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.973.973", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.974.974", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.977.977", "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": "P38426-1.977.977", "start_pos": 977, "end_pos": 977, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & 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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "SGVSPTDNSRISLSRTSSSM", "down_seq": "VGNNKKHFQNQVDFVCVSGS", "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": "Ser977", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38426", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38426" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser977" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38426-1.957.957", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38426-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38426-1.962.962", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38426-1.965.965", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38426-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.973.973", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.974.974", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.975.975", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" }, { "database": "O-GlcNAc Atlas", "id": "P38426", "url": "https://oglcnac.org/atlas/detail/P38426" } ], "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": "P38426", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426", "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": "P38426", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38426" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "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": "P38426-1.181.181", "start_pos": 181, "end_pos": 181, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426", "database": "UniProtKB", "categories": [ "Protein" ] }, { "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "SRSSAHHNDLSSSLMKNPNL", "down_seq": "FDSHPPRVRSSSKSAVITPV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser181" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38426-1.161.161", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38426-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38426-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38426-1.199.199", "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": 13 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.184.184", "start_pos": 184, "end_pos": 184, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "SAHHNDLSSSLMKNPNLSFD", "down_seq": "HPPRVRSSSKSAVITPVSKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38426-1.181.181", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38426-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38426-1.202.202", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38426-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.191.191", "start_pos": 191, "end_pos": 191, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "SSSLMKNPNLSFDSHPPRVR", "down_seq": "SSKSAVITPVSKSVPDVDPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser191" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38426-1.181.181", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.202.202", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38426-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSLMKNPNLSFDSHPPRVRS", "down_seq": "SKSAVITPVSKSVPDVDPAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser192" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38426-1.181.181", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38426-1.202.202", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.193.193", "start_pos": 193, "end_pos": 193, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "SLMKNPNLSFDSHPPRVRSS", "down_seq": "KSAVITPVSKSVPDVDPAVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser193" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38426-1.181.181", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38426-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.202.202", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.199.199", "start_pos": 199, "end_pos": 199, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NLSFDSHPPRVRSSSKSAVI", "down_seq": "PVSKSVPDVDPAVVDVAKVR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "Thr199" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38426-1.181.181", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38426-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.202.202", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.204.204", "start_pos": 204, "end_pos": 204, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "SHPPRVRSSSKSAVITPVSK", "down_seq": "VPDVDPAVVDVAKVREEFQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "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": "Ser204" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38426-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38426-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38426-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38426-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38426-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.202.202", "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": "P38426-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "IIVASLFLPYTPQFEADVTN", "down_seq": "DTAKLVESSMIKVDCNNQEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser23" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P38426-1.32.32", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "RVSGSTAGDSSIASSSSNLR", "down_seq": "SQQFQDNFIEDTDSEDDIDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" } ], "site_lbl": "Tyr253" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38426-1.235.235", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38426-1.237.237", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38426-1.238.238", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38426-1.242.242", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38426-1.243.243", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38426-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38426-1.273.273", "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": "P38426-1.254.254", "start_pos": 254, "end_pos": 254, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "VSGSTAGDSSIASSSSNLRY", "down_seq": "QQFQDNFIEDTDSEDDIDSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser254" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38426-1.235.235", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38426-1.237.237", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38426-1.238.238", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38426-1.242.242", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38426-1.243.243", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38426-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38426-1.273.273", "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": "P38426-1.265.265", "start_pos": 265, "end_pos": 265, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "ASSSSNLRYSQQFQDNFIED", "down_seq": "DSEDDIDSDLETDATKKYNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr265" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38426-1.246.246", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38426-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.273.273", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.267.267", "start_pos": 267, "end_pos": 267, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "SSSNLRYSQQFQDNFIEDTD", "down_seq": "EDDIDSDLETDATKKYNVPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser267" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38426-1.247.247", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38426-1.248.248", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38426-1.249.249", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38426-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.273.273", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.273.273", "start_pos": 273, "end_pos": 273, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426", "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "YSQQFQDNFIEDTDSEDDID", "down_seq": "DLETDATKKYNVPKFGGYSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser273" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38426-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38426-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38426-1.292.292", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38426-1.292.292", "start_pos": 292, "end_pos": 292, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "DSDLETDATKKYNVPKFGGY", "down_seq": "NNAKLRASLMRNSYELFKHL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser292" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38426-1.273.273", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.300.300", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38426-1.305.305", "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": "P38426-1.300.300", "start_pos": 300, "end_pos": 300, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "TKKYNVPKFGGYSNNAKLRA", "down_seq": "LMRNSYELFKHLPWTIVDSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser300" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38426-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.305.305", "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": "P38426-1.305.305", "start_pos": 305, "end_pos": 305, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "VPKFGGYSNNAKLRASLMRN", "down_seq": "YELFKHLPWTIVDSDKGNGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser305" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38426-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.300.300", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "YTPQFEADVTNSDTAKLVES", "down_seq": "MIKVDCNNQELSNNKQERSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser32" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38426-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38426-1.51.51", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38426-1.52.52", "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": "P38426-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "DTAKLVESSMIKVDCNNQEL", "down_seq": "NNKQERSSSVTSASSHYIGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser44" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38426-1.32.32", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.51.51", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.52.52", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.53.53", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.55.55", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.56.56", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38426-1.58.58", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38426-1.59.59", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38426-1.61.61", "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": "P38426-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "Y", "start_aa": "Y", "up_seq": "QELSNNKQERSSSVTSASSH", "down_seq": "IGLPQEAQINGEPLQRANVG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr61" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38426-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38426-1.51.51", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38426-1.52.52", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.53.53", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.55.55", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.56.56", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.58.58", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.59.59", "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": "P38426-1.700.700", "start_pos": 700, "end_pos": 700, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "CHEFIVSSFEKNAPLLLSEF", "down_seq": "GSSSVLKEGAILINPWDINH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr700" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.732.732", "start_pos": 732, "end_pos": 732, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "LINPWDINHVAQSIKRSLEM", "down_seq": "PEEKRRRWKKLFKSVIEHDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser732" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.82.82", "start_pos": 82, "end_pos": 82, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "IGLPQEAQINGEPLQRANVG", "down_seq": "PATGVNYHNEMEMLSSEQFL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser82" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.957.957", "start_pos": 957, "end_pos": 957, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "FVQQTGLALAAAEFLMKFYN", "down_seq": "GVSPTDNSRISLSRTSSSMS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser957" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38426-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.962.962", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.965.965", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38426-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38426-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38426-1.973.973", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38426-1.974.974", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38426-1.975.975", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38426-1.977.977", "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": "P38426-1.960.960", "start_pos": 960, "end_pos": 960, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "QTGLALAAAEFLMKFYNSGV", "down_seq": "PTDNSRISLSRTSSSMSVGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "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": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser960" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38426-1.957.957", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.962.962", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.965.965", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38426-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38426-1.973.973", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38426-1.974.974", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38426-1.975.975", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38426-1.977.977", "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": "P38426-1.962.962", "start_pos": 962, "end_pos": 962, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "GLALAAAEFLMKFYNSGVSP", "down_seq": "DNSRISLSRTSSSMSVGNNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr962" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38426-1.957.957", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.965.965", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38426-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38426-1.973.973", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.974.974", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38426-1.975.975", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38426-1.977.977", "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": "P38426-1.965.965", "start_pos": 965, "end_pos": 965, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "LAAAEFLMKFYNSGVSPTDN", "down_seq": "RISLSRTSSSMSVGNNKKHF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser965" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38426-1.957.957", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.962.962", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38426-1.973.973", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.974.974", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38426-1.975.975", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38426-1.977.977", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38426-1.968.968", "start_pos": 968, "end_pos": 968, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "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": "AEFLMKFYNSGVSPTDNSRI", "down_seq": "LSRTSSSMSVGNNKKHFQNQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser968" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38426-1.957.957", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38426-1.962.962", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38426-1.965.965", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.973.973", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38426-1.974.974", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.975.975", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38426-1.977.977", "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": "P38426-1.970.970", "start_pos": 970, "end_pos": 970, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "FLMKFYNSGVSPTDNSRISL", "down_seq": "RTSSSMSVGNNKKHFQNQVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser970" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38426-1.957.957", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38426-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38426-1.962.962", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38426-1.965.965", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.973.973", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38426-1.974.974", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.975.975", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38426-1.977.977", "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": "P38426-1.972.972", "start_pos": 972, "end_pos": 972, "uniprot_canonical_ac": "P38426-1", "length": 1054, "uniprot_id": "TPS3_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TPS3", "refseq_ac": "NP_013988", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TPS3", "gene_names_uniprotkb": "TPS3; YM8156.03C", "gene_names_refseq": "TPS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38426", "url": "https://www.uniprot.org/uniprotkb/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "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": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874", "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": "MKFYNSGVSPTDNSRISLSR", "down_seq": "SSSMSVGNNKKHFQNQVDFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38426", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38426" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000004874", "url": "https://www.yeastgenome.org/locus/S000004874" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr972" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "243", "end_pos": "243" }, { "start_pos": "246", "end_pos": "246" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "700", "end_pos": "700" }, { "start_pos": "732", "end_pos": "732" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "957", "end_pos": "957" }, { "start_pos": "960", "end_pos": "960" }, { "start_pos": "962", "end_pos": "962" }, { "start_pos": "965", "end_pos": "965" }, { "start_pos": "968", "end_pos": "968" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "975", "end_pos": "975" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38426-1.957.957", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38426-1.960.960", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38426-1.962.962", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38426-1.965.965", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38426-1.968.968", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38426-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38426-1.973.973", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38426-1.974.974", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38426-1.975.975", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38426-1.977.977", "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": "P38427-1.181.181", "start_pos": 181, "end_pos": 181, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38427" }, { "database": "O-GlcNAc Atlas", "id": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427" } ], "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": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPIQQQQQDPTTNLLKNVNK", "down_seq": "LLVHSLLNNTSQTSLEGPNN", "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": "Ser181", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38427", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38427" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38427-1.161.161", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38427-1.186.186", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38427-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38427-1.192.192", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38427-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38427-1.195.195", "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": "P38427-1.186.186", "start_pos": 186, "end_pos": 186, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38427" }, { "database": "O-GlcNAc Atlas", "id": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427" } ], "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": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQQDPTTNLLKNVNKSLLVH", "down_seq": "LLNNTSQTSLEGPNNHIVTP", "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": "Ser186", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38427", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38427" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38427-1.181.181", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38427-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38427-1.192.192", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38427-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38427-1.195.195", "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": "P38427-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38427" }, { "database": "O-GlcNAc Atlas", "id": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TNLLKNVNKSLLVHSLLNNT", "down_seq": "QTSLEGPNNHIVTPKSRAGN", "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": "Ser192", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38427", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38427" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser192" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38427-1.181.181", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38427-1.186.186", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38427-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38427-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38427-1.195.195", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.195.195", "start_pos": 195, "end_pos": 195, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38427" }, { "database": "O-GlcNAc Atlas", "id": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "LKNVNKSLLVHSLLNNTSQT", "down_seq": "LEGPNNHIVTPKSRAGNRPT", "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": "Ser195", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38427", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38427" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser195" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38427-1.181.181", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38427-1.186.186", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38427-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38427-1.192.192", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38427-1.194.194", "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": "P38427-1.216.216", "start_pos": 216, "end_pos": 216, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38427" }, { "database": "O-GlcNAc Atlas", "id": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "LEGPNNHIVTPKSRAGNRPT", "down_seq": "AATSLVNRTKQGSASSGSSG", "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": "Ser216", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38427", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38427" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser216" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38427-1.220.220", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38427-1.229.229", "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": "P38427-1.220.220", "start_pos": 220, "end_pos": 220, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38427" }, { "database": "O-GlcNAc Atlas", "id": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427" } ], "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": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNHIVTPKSRAGNRPTSAAT", "down_seq": "LVNRTKQGSASSGSSGSSAP", "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": "Ser220", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38427", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38427" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38427-1.216.216", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38427-1.229.229", "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": "P38427-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38427" }, { "database": "O-GlcNAc Atlas", "id": "P38427", "url": "https://oglcnac.org/atlas/detail/P38427" } ], "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": "P38427", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38427", "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": "P38427", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38427" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "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": 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": "P38427-1.1025.1025", "start_pos": 1025, "end_pos": 1025, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "TNIQTPSQQNPSDQEQQPPA", "down_seq": "PTVSMNHIDFACVSGSSSPV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1025" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P38427-1.1042.1042", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38427-1.1043.1043", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.1042.1042", "start_pos": 1042, "end_pos": 1042, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PPASPTVSMNHIDFACVSGS", "down_seq": "SPVLEPLFKLVNDEASEGQV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" } ], "site_lbl": "Ser1042" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38427-1.1025.1025", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38427-1.1043.1043", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38427-1.1058.1058", "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": "P38427-1.1043.1043", "start_pos": 1043, "end_pos": 1043, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "PASPTVSMNHIDFACVSGSS", "down_seq": "PVLEPLFKLVNDEASEGQVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1043" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38427-1.1025.1025", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38427-1.1042.1042", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38427-1.1058.1058", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.1058.1058", "start_pos": 1058, "end_pos": 1058, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "VSGSSSPVLEPLFKLVNDEA", "down_seq": "EGQVKAGHAIVYGDATSTYA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1058" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38427-1.1042.1042", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38427-1.1043.1043", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38427-1.1075.1075", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38427-1.1076.1076", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.1075.1075", "start_pos": 1075, "end_pos": 1075, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "DEASEGQVKAGHAIVYGDAT", "down_seq": "TYAKEHVNGLNELFTIISRI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1075" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38427-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38427-1.1076.1076", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.1076.1076", "start_pos": 1076, "end_pos": 1076, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "EASEGQVKAGHAIVYGDATS", "down_seq": "YAKEHVNGLNELFTIISRII", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1076" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38427-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38427-1.1075.1075", "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": "P38427-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "ATLDDLVSSDIFMENLTANA", "down_seq": "TSHTPTSKTMLKPRKNGSVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr111" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38427-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38427-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38427-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38427-1.129.129", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.113.113", "start_pos": 113, "end_pos": 113, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LDDLVSSDIFMENLTANATT", "down_seq": "HTPTSKTMLKPRKNGSVERF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" } ], "site_lbl": "Ser113" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38427-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38427-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38427-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38427-1.129.129", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "DLVSSDIFMENLTANATTSH", "down_seq": "PTSKTMLKPRKNGSVERFFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr115" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38427-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38427-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38427-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38427-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38427-1.135.135", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38427-1.118.118", "start_pos": 118, "end_pos": 118, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "SSDIFMENLTANATTSHTPT", "down_seq": "KTMLKPRKNGSVERFFSPSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser118" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38427-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38427-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38427-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38427-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38427-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38427-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38427-1.138.138", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.129.129", "start_pos": 129, "end_pos": 129, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NATTSHTPTSKTMLKPRKNG", "down_seq": "VERFFSPSSNIPTDRIASPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser129" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38427-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38427-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38427-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38427-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38427-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38427-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38427-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38427-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38427-1.147.147", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.135.135", "start_pos": 135, "end_pos": 135, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Identifying protein kinase-specific effectors of the osmostress response in yeast.", "journal": "Science signaling", "date": "2017-03-07", "authors": "Romanov Natalie, Hollenstein David Maria, Janschitz Marion, Ammerer Gustav, Anrather Dorothea, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "TPTSKTMLKPRKNGSVERFF", "down_seq": "PSSNIPTDRIASPIQHEHDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser135" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38427-1.115.115", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38427-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38427-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38427-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38427-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38427-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38427-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38427-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.137.137", "start_pos": 137, "end_pos": 137, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "TSKTMLKPRKNGSVERFFSP", "down_seq": "SNIPTDRIASPIQHEHDSGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser137" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38427-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38427-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38427-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38427-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38427-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38427-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38427-1.155.155", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38427-1.157.157", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.138.138", "start_pos": 138, "end_pos": 138, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "SKTMLKPRKNGSVERFFSPS", "down_seq": "NIPTDRIASPIQHEHDSGSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser138" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38427-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38427-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38427-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38427-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38427-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38427-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38427-1.155.155", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38427-1.157.157", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.142.142", "start_pos": 142, "end_pos": 142, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LKPRKNGSVERFFSPSSNIP", "down_seq": "DRIASPIQHEHDSGSRIASP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Thr142" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38427-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38427-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38427-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38427-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38427-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38427-1.155.155", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38427-1.157.157", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38427-1.161.161", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.147.147", "start_pos": 147, "end_pos": 147, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Yeast endosulfines control entry into quiescence and chronological life span by inhibiting protein phosphatase 2A.", "journal": "Cell reports", "date": "2013-01-31", "authors": "Bontron S\u00e9verine, Jaquenoud Malika, Vaga Stefania, Talarek Nicolas, Bodenmiller Bernd, Aebersold Ruedi, De Virgilio Claudio", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "23273919", "url": "https://glygen.org/publication/PubMed/23273919" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Identifying protein kinase-specific effectors of the osmostress response in yeast.", "journal": "Science signaling", "date": "2017-03-07", "authors": "Romanov Natalie, Hollenstein David Maria, Janschitz Marion, Ammerer Gustav, Anrather Dorothea, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23273919", "url": "https://glygen.org/publication/PubMed/23273919", "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": "28270554", "url": "https://glygen.org/publication/PubMed/28270554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NGSVERFFSPSSNIPTDRIA", "down_seq": "PIQHEHDSGSRIASPIQQQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "23273919", "url": "https://glygen.org/publication/PubMed/23273919" }, { "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": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser147" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38427-1.129.129", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38427-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38427-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38427-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38427-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38427-1.155.155", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38427-1.157.157", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38427-1.161.161", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38427-1.155.155", "start_pos": 155, "end_pos": 155, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPSSNIPTDRIASPIQHEHD", "down_seq": "GSRIASPIQQQQQDPTTNLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "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" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser155" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38427-1.135.135", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38427-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38427-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38427-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38427-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38427-1.157.157", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38427-1.161.161", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38427-1.157.157", "start_pos": 157, "end_pos": 157, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "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": "SSNIPTDRIASPIQHEHDSG", "down_seq": "RIASPIQQQQQDPTTNLLKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser157" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38427-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38427-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38427-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38427-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38427-1.155.155", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38427-1.161.161", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38427-1.161.161", "start_pos": 161, "end_pos": 161, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PTDRIASPIQHEHDSGSRIA", "down_seq": "PIQQQQQDPTTNLLKNVNKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser161" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38427-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38427-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38427-1.155.155", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38427-1.157.157", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38427-1.181.181", "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": "P38427-1.191.191", "start_pos": 191, "end_pos": 191, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TTNLLKNVNKSLLVHSLLNN", "down_seq": "SQTSLEGPNNHIVTPKSRAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Thr191" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38427-1.181.181", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38427-1.186.186", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38427-1.192.192", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38427-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38427-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.194.194", "start_pos": 194, "end_pos": 194, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LLKNVNKSLLVHSLLNNTSQ", "down_seq": "SLEGPNNHIVTPKSRAGNRP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" } ], "site_lbl": "Thr194" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38427-1.181.181", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38427-1.186.186", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38427-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38427-1.192.192", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38427-1.195.195", "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": "P38427-1.229.229", "start_pos": 229, "end_pos": 229, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "RAGNRPTSAATSLVNRTKQG", "down_seq": "ASSGSSGSSAPPSIKRITPH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser229" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38427-1.216.216", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38427-1.220.220", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38427-1.247.247", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.247.247", "start_pos": 247, "end_pos": 247, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QGSASSGSSGSSAPPSIKRI", "down_seq": "PHLTASAAKQRPLLAKQPSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Thr247" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38427-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38427-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38427-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38427-1.266.266", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.251.251", "start_pos": 251, "end_pos": 251, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SSGSSGSSAPPSIKRITPHL", "down_seq": "ASAAKQRPLLAKQPSNLKYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "site_lbl": "Thr251" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38427-1.247.247", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38427-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38427-1.266.266", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "GSSGSSAPPSIKRITPHLTA", "down_seq": "AAKQRPLLAKQPSNLKYSEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser253" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38427-1.247.247", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38427-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38427-1.266.266", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "ITPHLTASAAKQRPLLAKQP", "down_seq": "NLKYSELADISSSETSSQHN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "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": "Ser266" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38427-1.247.247", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38427-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38427-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38427-1.283.283", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.283.283", "start_pos": 283, "end_pos": 283, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KQPSNLKYSELADISSSETS", "down_seq": "QHNESDPDDLTTAPDEEYVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" } ], "site_lbl": "Ser283" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38427-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38427-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38427-1.303.303", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.288.288", "start_pos": 288, "end_pos": 288, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "LKYSELADISSSETSSQHNE", "down_seq": "DPDDLTTAPDEEYVSDLEMD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser288" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38427-1.283.283", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38427-1.303.303", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.303.303", "start_pos": 303, "end_pos": 303, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "SQHNESDPDDLTTAPDEEYV", "down_seq": "DLEMDDAKQDYKVPKFGGYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser303" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38427-1.283.283", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38427-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38427-1.323.323", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.323.323", "start_pos": 323, "end_pos": 323, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "SDLEMDDAKQDYKVPKFGGY", "down_seq": "NKSKLKKYALLRSSQELFSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser323" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38427-1.303.303", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38427-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38427-1.337.337", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.336.336", "start_pos": 336, "end_pos": 336, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "VPKFGGYSNKSKLKKYALLR", "down_seq": "SQELFSRLPWSIVPSIKGNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser336" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38427-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38427-1.337.337", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.337.337", "start_pos": 337, "end_pos": 337, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "PKFGGYSNKSKLKKYALLRS", "down_seq": "QELFSRLPWSIVPSIKGNGA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser337" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38427-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38427-1.336.336", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.49.49", "start_pos": 49, "end_pos": 49, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DSSLVNIQAMANDQQQQRAL", "down_seq": "NNISQESLVAPAPEQGVPPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser49" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38427-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38427-1.56.56", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VNIQAMANDQQQQRALSNNI", "down_seq": "QESLVAPAPEQGVPPAISRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser53" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38427-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38427-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38427-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38427-1.73.73", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QAMANDQQQQRALSNNISQE", "down_seq": "LVAPAPEQGVPPAISRSATR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser56" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38427-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38427-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38427-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38427-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38427-1.75.75", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.640.640", "start_pos": 640, "end_pos": 640, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "HKKLLAYEKFLVENPEYVEK", "down_seq": "TLIQICIGSSKDVELERQIM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser640" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "NISQESLVAPAPEQGVPPAI", "down_seq": "RSATRSPSAFNRASSTTNTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser71" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38427-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38427-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38427-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38427-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38427-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38427-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38427-1.86.86", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "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": "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": "SQESLVAPAPEQGVPPAISR", "down_seq": "ATRSPSAFNRASSTTNTATL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser73" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38427-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38427-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38427-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38427-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38427-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38427-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38427-1.86.86", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "ESLVAPAPEQGVPPAISRSA", "down_seq": "RSPSAFNRASSTTNTATLDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr75" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38427-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38427-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38427-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38427-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38427-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38427-1.86.86", "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": "P38427-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Yeast endosulfines control entry into quiescence and chronological life span by inhibiting protein phosphatase 2A.", "journal": "Cell reports", "date": "2013-01-31", "authors": "Bontron S\u00e9verine, Jaquenoud Malika, Vaga Stefania, Talarek Nicolas, Bodenmiller Bernd, Aebersold Ruedi, De Virgilio Claudio", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "23273919", "url": "https://glygen.org/publication/PubMed/23273919" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23273919", "url": "https://glygen.org/publication/PubMed/23273919", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LVAPAPEQGVPPAISRSATR", "down_seq": "PSAFNRASSTTNTATLDDLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23273919", "url": "https://glygen.org/publication/PubMed/23273919" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38427-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38427-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38427-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38427-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38427-1.86.86", "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": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.79.79", "start_pos": 79, "end_pos": 79, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "APAPEQGVPPAISRSATRSP", "down_seq": "AFNRASSTTNTATLDDLVSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "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": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser79" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38427-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38427-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38427-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38427-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38427-1.86.86", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.815.815", "start_pos": 815, "end_pos": 815, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "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": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "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": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "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": "QDIHISWQFNQEGSKIFKLN", "down_seq": "KTLMEDYQSSKKRMFVFNIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr815" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38427-1.817.817", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38427-1.817.817", "start_pos": 817, "end_pos": 817, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "IHISWQFNQEGSKIFKLNTK", "down_seq": "LMEDYQSSKKRMFVFNIAEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr817" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38427-1.815.815", "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": "P38427-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "P38427-1", "length": 1098, "uniprot_id": "TSL1_YEAST", "protein_name": "Trehalose synthase complex regulatory subunit TSL1", "refseq_ac": "NP_013608", "refseq_name": "trehalose 6-phosphate synthase/phosphatase complex subunit", "gene_name": "TSL1", "gene_names_uniprotkb": "TSL1", "gene_names_refseq": "TSL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38427", "url": "https://www.uniprot.org/uniprotkb/P38427" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427", "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": "VPPAISRSATRSPSAFNRAS", "down_seq": "TTNTATLDDLVSSDIFMENL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004566", "url": "https://www.yeastgenome.org/locus/S000004566" }, { "database": "iPTMnet", "id": "P38427", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38427" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser86" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "181", "end_pos": "181" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "220", "end_pos": "220" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1075", "end_pos": "1075" }, { "start_pos": "1076", "end_pos": "1076" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "216", "end_pos": "216" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "283", "end_pos": "283" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38427-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38427-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38427-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38427-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38427-1.79.79", "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": "P38623-1.601.601", "start_pos": 601, "end_pos": 601, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] }, { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "LDTSTILQRRKKVQENDVGP", "down_seq": "IPISATIRE", "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": "Thr601", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr601" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38623-1.605.605", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.186.186", "start_pos": 186, "end_pos": 186, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "INKIGEGAFSKVFRAIPAKN", "down_seq": "SNEFLTKNYKAVAIKVIKKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "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": "Ser186" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38623-1.187.187", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "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": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "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": "NKIGEGAFSKVFRAIPAKNS", "down_seq": "NEFLTKNYKAVAIKVIKKAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "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": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "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": "Ser187" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38623-1.186.186", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38623-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "MLKIKALFSKKKPDQADL", "down_seq": "QESKKPFKGKTRSSGTNNKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser19" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38623-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38623-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38623-1.35.35", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.22.22", "start_pos": 22, "end_pos": 22, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "LKIKALFSKKKPDQADLSQE", "down_seq": "KKPFKGKTRSSGTNNKDVSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser22" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38623-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38623-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38623-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38623-1.41.41", "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": "P38623-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "PDQADLSQESKKPFKGKTRS", "down_seq": "GTNNKDVSQITSSPKKSFQD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser33" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38623-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38623-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38623-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38623-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38623-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38623-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38623-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38623-1.50.50", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.350.350", "start_pos": 350, "end_pos": 350, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Identifying protein kinase-specific effectors of the osmostress response in yeast.", "journal": "Science signaling", "date": "2017-03-07", "authors": "Romanov Natalie, Hollenstein David Maria, Janschitz Marion, Ammerer Gustav, Anrather Dorothea, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" } ] }, { "title": "Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages.", "journal": "Cell communication and signaling : CCS", "date": "2019-06-17", "authors": "Janschitz Marion, Romanov Natalie, Varnavides Gina, Hollenstein David Maria, G\u00e9recov\u00e1 Gabriela, Ammerer Gustav, Hartl Markus, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://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": "IKPKLRKSDDPQTKADEGIF", "down_seq": "PGVGGGGIGIVKLADFGLSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" }, { "database": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr350" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "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": "P38623-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "QADLSQESKKPFKGKTRSSG", "down_seq": "NNKDVSQITSSPKKSFQDKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr35" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38623-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38623-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38623-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38623-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38623-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38623-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38623-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38623-1.50.50", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.379.379", "start_pos": 379, "end_pos": 379, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Rck2, a member of the calmodulin-protein kinase family, links protein synthesis to high osmolarity MAP kinase signaling in budding yeast.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2001-05-08", "authors": "Teige M, Scheikl E, Reiser V, Ruis H, Ammerer G", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "11344302", "url": "https://glygen.org/publication/PubMed/11344302" } ] }, { "title": "Identifying protein kinase-specific effectors of the osmostress response in yeast.", "journal": "Science signaling", "date": "2017-03-07", "authors": "Romanov Natalie, Hollenstein David Maria, Janschitz Marion, Ammerer Gustav, Anrather Dorothea, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" } ] }, { "title": "Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages.", "journal": "Cell communication and signaling : CCS", "date": "2019-06-17", "authors": "Janschitz Marion, Romanov Natalie, Varnavides Gina, Hollenstein David Maria, G\u00e9recov\u00e1 Gabriela, Ammerer Gustav, Hartl Markus, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" } ] } ], "crossref": [ { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11344302", "url": "https://glygen.org/publication/PubMed/11344302", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GIVKLADFGLSKQIFSKNTK", "down_seq": "PCGTVGYTAPEVVKDEHYSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "11344302", "url": "https://glygen.org/publication/PubMed/11344302" }, { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" }, { "database": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" } ], "site_lbl": "Thr379" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "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": "P38623-1.41.41", "start_pos": 41, "end_pos": 41, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "ESKKPFKGKTRSSGTNNKDV", "down_seq": "QITSSPKKSFQDKNIVQYPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser41" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38623-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38623-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38623-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38623-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38623-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38623-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38623-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38623-1.61.61", "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": "P38623-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KPFKGKTRSSGTNNKDVSQI", "down_seq": "SSPKKSFQDKNIVQYPSVVA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "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": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr44" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38623-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38623-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38623-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38623-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38623-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38623-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38623-1.61.61", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PFKGKTRSSGTNNKDVSQIT", "down_seq": "SPKKSFQDKNIVQYPSVVAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "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": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser45" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38623-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38623-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38623-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38623-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38623-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38623-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38623-1.61.61", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.46.46", "start_pos": 46, "end_pos": 46, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "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": "FKGKTRSSGTNNKDVSQITS", "down_seq": "PKKSFQDKNIVQYPSVVADD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "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": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "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": "Ser46" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38623-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38623-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38623-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38623-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38623-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38623-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38623-1.61.61", "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": 15 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TRSSGTNNKDVSQITSSPKK", "down_seq": "FQDKNIVQYPSVVADDHHMK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "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": "Ser50" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38623-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38623-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38623-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38623-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38623-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38623-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38623-1.61.61", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.515.515", "start_pos": 515, "end_pos": 515, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages.", "journal": "Cell communication and signaling : CCS", "date": "2019-06-17", "authors": "Janschitz Marion, Romanov Natalie, Varnavides Gina, Hollenstein David Maria, G\u00e9recov\u00e1 Gabriela, Ammerer Gustav, Hartl Markus, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "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": "31208443", "url": "https://glygen.org/publication/PubMed/31208443", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AGTSERRHPHKKQFQLFQRD", "down_seq": "SLLFSPAAVAMRDAFDIGNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "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": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "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": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser515" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38623-1.516.516", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38623-1.520.520", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.516.516", "start_pos": 516, "end_pos": 516, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "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": "S", "start_aa": "S", "up_seq": "GTSERRHPHKKQFQLFQRDS", "down_seq": "LLFSPAAVAMRDAFDIGNAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "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": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "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": "Ser516" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38623-1.515.515", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38623-1.520.520", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.520.520", "start_pos": 520, "end_pos": 520, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Rck2 kinase is a substrate for the osmotic stress-activated mitogen-activated protein kinase Hog1.", "journal": "Molecular and cellular biology", "date": "2000-06", "authors": "Bilsland-Marchesan E, Ari\u00f1o J, Saito H, Sunnerhagen P, Posas F", "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "10805732", "url": "https://glygen.org/publication/PubMed/10805732" } ] }, { "title": "Rck2, a member of the calmodulin-protein kinase family, links protein synthesis to high osmolarity MAP kinase signaling in budding yeast.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2001-05-08", "authors": "Teige M, Scheikl E, Reiser V, Ruis H, Ammerer G", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "11344302", "url": "https://glygen.org/publication/PubMed/11344302" } ] }, { "title": "Analyses of the effects of Rck2p mutants on Pbs2pDD-induced toxicity in Saccharomyces cerevisiae identify a MAP kinase docking motif, and unexpected functional inactivation due to acidic substitution of T379.", "journal": "Molecular genetics and genomics : MGG", "date": "2004-03", "authors": "Jiang L, Niu S, Clines K L, Burke D J, Sturgill T W", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "14735355", "url": "https://glygen.org/publication/PubMed/14735355" } ] }, { "title": "Identifying protein kinase-specific effectors of the osmostress response in yeast.", "journal": "Science signaling", "date": "2017-03-07", "authors": "Romanov Natalie, Hollenstein David Maria, Janschitz Marion, Ammerer Gustav, Anrather Dorothea, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" } ] }, { "title": "Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages.", "journal": "Cell communication and signaling : CCS", "date": "2019-06-17", "authors": "Janschitz Marion, Romanov Natalie, Varnavides Gina, Hollenstein David Maria, G\u00e9recov\u00e1 Gabriela, Ammerer Gustav, Hartl Markus, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10805732", "url": "https://glygen.org/publication/PubMed/10805732", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11344302", "url": "https://glygen.org/publication/PubMed/11344302", "database": "PubMed", "categories": [ "Other" ] }, { "id": "14735355", "url": "https://glygen.org/publication/PubMed/14735355", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443", "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": "RRHPHKKQFQLFQRDSSLLF", "down_seq": "PAAVAMRDAFDIGNAVKRTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "PubMed", "id": "10805732", "url": "https://glygen.org/publication/PubMed/10805732" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "11344302", "url": "https://glygen.org/publication/PubMed/11344302" }, { "database": "PubMed", "id": "14735355", "url": "https://glygen.org/publication/PubMed/14735355" }, { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" }, { "database": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser520" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38623-1.515.515", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38623-1.516.516", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.564.564", "start_pos": 564, "end_pos": 564, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "MGTRGGLGSLAEDEELEDSY", "down_seq": "GAQGDEQLEQNMFQLTLDTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser564" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "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": "P38623-1.605.605", "start_pos": 605, "end_pos": 605, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "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": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "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": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "TILQRRKKVQENDVGPTIPI", "down_seq": "ATIRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "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": "Ser605" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38623-1.601.601", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38623-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "P38623-1", "length": 610, "uniprot_id": "RCK2_YEAST", "protein_name": "Serine/threonine-protein kinase RCK2", "refseq_ac": "NP_013349", "refseq_name": "serine/threonine protein kinase RCK2", "gene_name": "RCK2", "gene_names_uniprotkb": "RCK2; CLK1; CMK3; L9672.6", "gene_names_refseq": "CLK1; CMK3; RCK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38623", "url": "https://www.uniprot.org/uniprotkb/P38623" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623", "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": "SQITSSPKKSFQDKNIVQYP", "down_seq": "VVADDHHMKSLTDELVTTID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004238", "url": "https://www.yeastgenome.org/locus/S000004238" }, { "database": "iPTMnet", "id": "P38623", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38623" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser61" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "601", "end_pos": "601" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "186", "end_pos": "186" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "601", "end_pos": "601" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "61", "end_pos": "61" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38623-1.41.41", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38623-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38623-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38623-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38623-1.50.50", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38629-1.201.201", "start_pos": 201, "end_pos": 201, "uniprot_canonical_ac": "P38629-1", "length": 340, "uniprot_id": "RFC3_YEAST", "protein_name": "Replication factor C subunit 3", "refseq_ac": "NP_014109", "refseq_name": "replication factor C subunit 3", "gene_name": "RFC3", "gene_names_uniprotkb": "RFC3; N0533", "gene_names_refseq": "RFC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38629", "url": "https://www.uniprot.org/uniprotkb/P38629" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38629", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38629" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005234", "url": "https://www.yeastgenome.org/locus/S000005234", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38629", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38629", "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": "VLVHEKLKLSPNAEKALIEL", "down_seq": "NGDMRRVLNVLQSCKATLDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005234", "url": "https://www.yeastgenome.org/locus/S000005234" }, { "database": "iPTMnet", "id": "P38629", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38629" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser201" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "201", "end_pos": "201" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38629-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P38629-1", "length": 340, "uniprot_id": "RFC3_YEAST", "protein_name": "Replication factor C subunit 3", "refseq_ac": "NP_014109", "refseq_name": "replication factor C subunit 3", "gene_name": "RFC3", "gene_names_uniprotkb": "RFC3; N0533", "gene_names_refseq": "RFC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38629", "url": "https://www.uniprot.org/uniprotkb/P38629" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38629", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38629" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005234", "url": "https://www.yeastgenome.org/locus/S000005234", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38629", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38629", "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": "TSTEKRSKENLPWVEKYRPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005234", "url": "https://www.yeastgenome.org/locus/S000005234" }, { "database": "iPTMnet", "id": "P38629", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38629" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "201", "end_pos": "201" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38629-1.4.4", "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": "P38629-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P38629-1", "length": 340, "uniprot_id": "RFC3_YEAST", "protein_name": "Replication factor C subunit 3", "refseq_ac": "NP_014109", "refseq_name": "replication factor C subunit 3", "gene_name": "RFC3", "gene_names_uniprotkb": "RFC3; N0533", "gene_names_refseq": "RFC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38629", "url": "https://www.uniprot.org/uniprotkb/P38629" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38629", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38629" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005234", "url": "https://www.yeastgenome.org/locus/S000005234", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38629", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38629", "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": "MST", "down_seq": "TEKRSKENLPWVEKYRPETL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005234", "url": "https://www.yeastgenome.org/locus/S000005234" }, { "database": "iPTMnet", "id": "P38629", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38629" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "201", "end_pos": "201" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38629-1.2.2", "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": "P38633-1.11.11", "start_pos": 11, "end_pos": 11, "uniprot_canonical_ac": "P38633-1", "length": 127, "uniprot_id": "MED31_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 31", "refseq_ac": "NP_011388", "refseq_name": "mediator complex subunit SOH1", "gene_name": "SOH1", "gene_names_uniprotkb": "SOH1; G2864; MED31", "gene_names_refseq": "MED31; SOH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38633", "url": "https://www.uniprot.org/uniprotkb/P38633" } ], "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": "P38633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38633" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38633" } ], "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": "S000003095", "url": "https://www.yeastgenome.org/locus/S000003095", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38633", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "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": "MSSTNGNAPA", "down_seq": "PSSDQNPLPTRFEVELEFIQ", "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": "Thr11", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003095", "url": "https://www.yeastgenome.org/locus/S000003095" }, { "database": "iPTMnet", "id": "P38633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38633" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr11" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "11", "end_pos": "11" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" } ] } ], "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": 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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38689-1.310.310", "start_pos": 310, "end_pos": 310, "uniprot_canonical_ac": "P38689-1", "length": 320, "uniprot_id": "KPR3_YEAST", "protein_name": "Ribose-phosphate pyrophosphokinase 3", "refseq_ac": "NP_011852", "refseq_name": "ribose phosphate diphosphokinase subunit PRS3", "gene_name": "PRS3", "gene_names_uniprotkb": "PRS3; PRPS3", "gene_names_refseq": "PRS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38689", "url": "https://www.uniprot.org/uniprotkb/P38689" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38689", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38689" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001003", "url": "https://www.yeastgenome.org/locus/S000001003", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38689", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38689", "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": "AVIDISSVLAESIRRLHNGE", "down_seq": "ISYLFKNYPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001003", "url": "https://www.yeastgenome.org/locus/S000001003" }, { "database": "iPTMnet", "id": "P38689", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38689" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser310" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "310", "end_pos": "310" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "313", "end_pos": "313" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38689-1.312.312", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38689-1.313.313", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38689-1.312.312", "start_pos": 312, "end_pos": 312, "uniprot_canonical_ac": "P38689-1", "length": 320, "uniprot_id": "KPR3_YEAST", "protein_name": "Ribose-phosphate pyrophosphokinase 3", "refseq_ac": "NP_011852", "refseq_name": "ribose phosphate diphosphokinase subunit PRS3", "gene_name": "PRS3", "gene_names_uniprotkb": "PRS3; PRPS3", "gene_names_refseq": "PRS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38689", "url": "https://www.uniprot.org/uniprotkb/P38689" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38689", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38689" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001003", "url": "https://www.yeastgenome.org/locus/S000001003", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38689", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38689", "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": "IDISSVLAESIRRLHNGESI", "down_seq": "YLFKNYPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001003", "url": "https://www.yeastgenome.org/locus/S000001003" }, { "database": "iPTMnet", "id": "P38689", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38689" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser312" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "310", "end_pos": "310" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "313", "end_pos": "313" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38689-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38689-1.313.313", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38689-1.313.313", "start_pos": 313, "end_pos": 313, "uniprot_canonical_ac": "P38689-1", "length": 320, "uniprot_id": "KPR3_YEAST", "protein_name": "Ribose-phosphate pyrophosphokinase 3", "refseq_ac": "NP_011852", "refseq_name": "ribose phosphate diphosphokinase subunit PRS3", "gene_name": "PRS3", "gene_names_uniprotkb": "PRS3; PRPS3", "gene_names_refseq": "PRS3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38689", "url": "https://www.uniprot.org/uniprotkb/P38689" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38689", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38689" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001003", "url": "https://www.yeastgenome.org/locus/S000001003", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38689", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38689", "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": "DISSVLAESIRRLHNGESIS", "down_seq": "LFKNYPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001003", "url": "https://www.yeastgenome.org/locus/S000001003" }, { "database": "iPTMnet", "id": "P38689", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38689" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr313" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "310", "end_pos": "310" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "313", "end_pos": "313" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38689-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38689-1.312.312", "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": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.784.784", "start_pos": 784, "end_pos": 784, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38691" }, { "database": "O-GlcNAc Atlas", "id": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TSLHINNNNNESNELPDLLK", "down_seq": "PASSEAHLNLSSGPIDPILT", "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": "Ser784", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38691", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38691" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" } ], "site_lbl": "Ser784" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38691-1.787.787", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38691-1.788.788", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38691-1.795.795", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38691-1.796.796", "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": "P38691-1.787.787", "start_pos": 787, "end_pos": 787, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38691" }, { "database": "O-GlcNAc Atlas", "id": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "HINNNNNESNELPDLLKSPA", "down_seq": "SEAHLNLSSGPIDPILTGNI", "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": "Ser787", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38691", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38691" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser787" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38691-1.784.784", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.788.788", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38691-1.795.795", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38691-1.796.796", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.788.788", "start_pos": 788, "end_pos": 788, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38691" }, { "database": "O-GlcNAc Atlas", "id": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "INNNNNESNELPDLLKSPAS", "down_seq": "EAHLNLSSGPIDPILTGNIG", "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": "Ser788", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38691", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38691" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser788" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38691-1.784.784", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.787.787", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38691-1.795.795", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38691-1.796.796", "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": "P38691-1.795.795", "start_pos": 795, "end_pos": 795, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38691" }, { "database": "O-GlcNAc Atlas", "id": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "SNELPDLLKSPASSEAHLNL", "down_seq": "SGPIDPILTGNIGNRYSHSS", "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": "Ser795", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38691", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38691" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser795" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38691-1.784.784", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38691-1.787.787", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38691-1.788.788", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.796.796", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38691-1.814.814", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38691-1.815.815", "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": "P38691-1.796.796", "start_pos": 796, "end_pos": 796, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38691" }, { "database": "O-GlcNAc Atlas", "id": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691" } ], "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": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NELPDLLKSPASSEAHLNLS", "down_seq": "GPIDPILTGNIGNRYSHSSD", "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": "Ser796", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P38691", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P38691" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38691-1.784.784", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38691-1.787.787", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38691-1.788.788", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.795.795", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38691-1.814.814", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38691-1.815.815", "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": "P38691-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38691" }, { "database": "O-GlcNAc Atlas", "id": "P38691", "url": "https://oglcnac.org/atlas/detail/P38691" } ], "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": "P38691", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38691", "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": "P38691", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P38691" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "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": "P38691-1.1005.1005", "start_pos": 1005, "end_pos": 1005, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "IYAQTFAGSTHDKKLGAGRK", "down_seq": "SIQDEMVGSLEQYKNNWLIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Thr1005" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38691-1.1006.1006", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38691-1.1014.1014", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.1006.1006", "start_pos": 1006, "end_pos": 1006, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "YAQTFAGSTHDKKLGAGRKT", "down_seq": "IQDEMVGSLEQYKNNWLILQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser1006" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38691-1.1005.1005", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38691-1.1014.1014", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.1014.1014", "start_pos": 1014, "end_pos": 1014, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "THDKKLGAGRKTSIQDEMVG", "down_seq": "LEQYKNNWLILQQQD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser1014" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38691-1.1005.1005", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38691-1.1006.1006", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.113.113", "start_pos": 113, "end_pos": 113, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "ASSNNGSSREKKHNLYKHKK", "down_seq": "LISSKVKSRLSNNICLEAMY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser113" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38691-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38691-1.117.117", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38691-1.121.121", "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": "P38691-1.117.117", "start_pos": 117, "end_pos": 117, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "NGSSREKKHNLYKHKKSLIS", "down_seq": "KVKSRLSNNICLEAMYEVDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser117" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38691-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38691-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38691-1.121.121", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.121.121", "start_pos": 121, "end_pos": 121, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "REKKHNLYKHKKSLISSKVK", "down_seq": "RLSNNICLEAMYEVDIQTKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser121" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38691-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38691-1.117.117", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.28.28", "start_pos": 28, "end_pos": 28, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "YKEGGILNNRYQKIEDISEG", "down_seq": "YGYVSLAKDVREKRLVAVKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser28" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "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": "P38691-1.416.416", "start_pos": 416, "end_pos": 416, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QHMPEFKKDFNFNNVNERKR", "down_seq": "DVSQNQNVASGFFKKPSTQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser416" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38691-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38691-1.426.426", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.419.419", "start_pos": 419, "end_pos": 419, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PEFKKDFNFNNVNERKRSDV", "down_seq": "QNQNVASGFFKKPSTQQQKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser419" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38691-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38691-1.426.426", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.426.426", "start_pos": 426, "end_pos": 426, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "NFNNVNERKRSDVSQNQNVA", "down_seq": "GFFKKPSTQQQKFFNQGYNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser426" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38691-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38691-1.419.419", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.476.476", "start_pos": 476, "end_pos": 476, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "SAPKFKFKKRNKYGRTDNQF", "down_seq": "KPVNIEDRKKSKILKKSRKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser476" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P38691-1.487.487", "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": "P38691-1.487.487", "start_pos": 487, "end_pos": 487, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "KYGRTDNQFSKPVNIEDRKK", "down_seq": "KILKKSRKPLGIPTPNTHMN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser487" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38691-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38691-1.501.501", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38691-1.504.504", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.501.501", "start_pos": 501, "end_pos": 501, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IEDRKKSKILKKSRKPLGIP", "down_seq": "PNTHMNNFFHDYKARDEFNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr501" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38691-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38691-1.504.504", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.504.504", "start_pos": 504, "end_pos": 504, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RKKSKILKKSRKPLGIPTPN", "down_seq": "HMNNFFHDYKARDEFNTRDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" } ], "site_lbl": "Thr504" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38691-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38691-1.501.501", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.526.526", "start_pos": 526, "end_pos": 526, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MNNFFHDYKARDEFNTRDFF", "down_seq": "PPSVQHRYMEGFSNNNNKQY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Thr526" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38691-1.529.529", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38691-1.539.539", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.529.529", "start_pos": 529, "end_pos": 529, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Ksp1-dependent phosphorylation of eIF4G modulates post-transcriptional regulation of specific mRNAs under glucose deprivation conditions.", "journal": "Nucleic acids research", "date": "2018-04-06", "authors": "Chang Yeonji, Huh Won-Ki", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "29438499", "url": "https://glygen.org/publication/PubMed/29438499" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "29438499", "url": "https://glygen.org/publication/PubMed/29438499", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "FFHDYKARDEFNTRDFFTPP", "down_seq": "VQHRYMEGFSNNNNKQYRQN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "29438499", "url": "https://glygen.org/publication/PubMed/29438499" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser529" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38691-1.526.526", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38691-1.539.539", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.539.539", "start_pos": 539, "end_pos": 539, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "FNTRDFFTPPSVQHRYMEGF", "down_seq": "NNNNKQYRQNRNYNNNNNNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser539" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38691-1.526.526", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38691-1.529.529", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38691-1.552.552", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38691-1.559.559", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.552.552", "start_pos": 552, "end_pos": 552, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "HRYMEGFSNNNNKQYRQNRN", "down_seq": "NNNNNNSNNNHGSNYNNFNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr552" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38691-1.539.539", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38691-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38691-1.565.565", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.559.559", "start_pos": 559, "end_pos": 559, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "SNNNNKQYRQNRNYNNNNNN", "down_seq": "NNNHGSNYNNFNNGNSYIKG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser559" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38691-1.539.539", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38691-1.552.552", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38691-1.565.565", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38691-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38691-1.576.576", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.565.565", "start_pos": 565, "end_pos": 565, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "QYRQNRNYNNNNNNSNNNHG", "down_seq": "NYNNFNNGNSYIKGWNKNFN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser565" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38691-1.552.552", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38691-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38691-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38691-1.576.576", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.575.575", "start_pos": 575, "end_pos": 575, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "NNNNSNNNHGSNYNNFNNGN", "down_seq": "YIKGWNKNFNKYRRPSSSSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser575" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38691-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38691-1.565.565", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38691-1.591.591", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38691-1.592.592", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38691-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38691-1.594.594", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38691-1.595.595", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.576.576", "start_pos": 576, "end_pos": 576, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "NNNSNNNHGSNYNNFNNGNS", "down_seq": "IKGWNKNFNKYRRPSSSSYT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr576" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38691-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38691-1.565.565", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38691-1.591.591", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38691-1.592.592", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38691-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38691-1.594.594", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38691-1.595.595", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38691-1.596.596", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.591.591", "start_pos": 591, "end_pos": 591, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Ksp1 kinase regulates autophagy via the target of rapamycin complex 1 (TORC1) pathway.", "journal": "The Journal of biological chemistry", "date": "2012-05-11", "authors": "Umekawa Midori, Klionsky Daniel J", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNGNSYIKGWNKNFNKYRRP", "down_seq": "SSSYTGKSPLSRYNMSYNHN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937" }, { "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": "Ser591" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38691-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38691-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.592.592", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38691-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38691-1.594.594", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38691-1.595.595", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38691-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38691-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38691-1.602.602", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.592.592", "start_pos": 592, "end_pos": 592, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "NGNSYIKGWNKNFNKYRRPS", "down_seq": "SSYTGKSPLSRYNMSYNHNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser592" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38691-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38691-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.591.591", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38691-1.594.594", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38691-1.595.595", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38691-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38691-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38691-1.602.602", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.593.593", "start_pos": 593, "end_pos": 593, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GNSYIKGWNKNFNKYRRPSS", "down_seq": "SYTGKSPLSRYNMSYNHNNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser593" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38691-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38691-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38691-1.591.591", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.592.592", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.594.594", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38691-1.595.595", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38691-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38691-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38691-1.602.602", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.594.594", "start_pos": 594, "end_pos": 594, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSYIKGWNKNFNKYRRPSSS", "down_seq": "YTGKSPLSRYNMSYNHNNNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser594" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38691-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38691-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38691-1.591.591", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38691-1.592.592", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.595.595", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38691-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38691-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38691-1.602.602", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.595.595", "start_pos": 595, "end_pos": 595, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SYIKGWNKNFNKYRRPSSSS", "down_seq": "TGKSPLSRYNMSYNHNNNSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Tyr595" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38691-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38691-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38691-1.591.591", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38691-1.592.592", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38691-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.594.594", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38691-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38691-1.602.602", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38691-1.615.615", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.596.596", "start_pos": 596, "end_pos": 596, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "YIKGWNKNFNKYRRPSSSSY", "down_seq": "GKSPLSRYNMSYNHNNNSSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Thr596" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38691-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38691-1.591.591", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38691-1.592.592", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38691-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38691-1.594.594", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.595.595", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38691-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38691-1.602.602", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38691-1.615.615", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.599.599", "start_pos": 599, "end_pos": 599, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "GWNKNFNKYRRPSSSSYTGK", "down_seq": "PLSRYNMSYNHNNNSSINGY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser599" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38691-1.591.591", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38691-1.592.592", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38691-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38691-1.594.594", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38691-1.595.595", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38691-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38691-1.602.602", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38691-1.615.615", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.602.602", "start_pos": 602, "end_pos": 602, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KNFNKYRRPSSSSYTGKSPL", "down_seq": "RYNMSYNHNNNSSINGYARR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" } ], "site_lbl": "Ser602" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38691-1.591.591", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38691-1.592.592", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38691-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38691-1.594.594", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38691-1.595.595", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38691-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38691-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38691-1.615.615", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.615.615", "start_pos": 615, "end_pos": 615, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "YTGKSPLSRYNMSYNHNNNS", "down_seq": "INGYARRGSTTTVQHSPGAY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser615" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38691-1.595.595", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38691-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38691-1.599.599", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38691-1.602.602", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38691-1.624.624", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38691-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38691-1.627.627", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38691-1.631.631", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38691-1.635.635", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.624.624", "start_pos": 624, "end_pos": 624, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Ksp1-dependent phosphorylation of eIF4G modulates post-transcriptional regulation of specific mRNAs under glucose deprivation conditions.", "journal": "Nucleic acids research", "date": "2018-04-06", "authors": "Chang Yeonji, Huh Won-Ki", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "29438499", "url": "https://glygen.org/publication/PubMed/29438499" } ] }, { "title": "Ksp1 kinase regulates autophagy via the target of rapamycin complex 1 (TORC1) pathway.", "journal": "The Journal of biological chemistry", "date": "2012-05-11", "authors": "Umekawa Midori, Klionsky Daniel J", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "29438499", "url": "https://glygen.org/publication/PubMed/29438499", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YNMSYNHNNNSSINGYARRG", "down_seq": "TTTVQHSPGAYIPPNARNHH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "29438499", "url": "https://glygen.org/publication/PubMed/29438499" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser624" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38691-1.615.615", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38691-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38691-1.627.627", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38691-1.631.631", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38691-1.635.635", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.626.626", "start_pos": 626, "end_pos": 626, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "MSYNHNNNSSINGYARRGST", "down_seq": "TVQHSPGAYIPPNARNHHVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr626" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38691-1.615.615", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38691-1.624.624", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.627.627", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38691-1.631.631", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38691-1.635.635", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38691-1.646.646", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.627.627", "start_pos": 627, "end_pos": 627, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & 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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SYNHNNNSSINGYARRGSTT", "down_seq": "VQHSPGAYIPPNARNHHVSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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" } ], "site_lbl": "Thr627" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38691-1.615.615", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38691-1.624.624", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38691-1.631.631", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38691-1.635.635", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38691-1.646.646", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.631.631", "start_pos": 631, "end_pos": 631, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "NNNSSINGYARRGSTTTVQH", "down_seq": "PGAYIPPNARNHHVSPTNQF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser631" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38691-1.615.615", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38691-1.624.624", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38691-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38691-1.627.627", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38691-1.635.635", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38691-1.646.646", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.635.635", "start_pos": 635, "end_pos": 635, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SINGYARRGSTTTVQHSPGA", "down_seq": "IPPNARNHHVSPTNQFLRVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr635" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38691-1.615.615", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38691-1.624.624", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38691-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38691-1.627.627", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38691-1.631.631", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38691-1.646.646", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.646.646", "start_pos": 646, "end_pos": 646, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "TTVQHSPGAYIPPNARNHHV", "down_seq": "PTNQFLRVPQSTAPDISTVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser646" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38691-1.626.626", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38691-1.627.627", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38691-1.631.631", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38691-1.635.635", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38691-1.657.657", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38691-1.658.658", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.657.657", "start_pos": 657, "end_pos": 657, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "PPNARNHHVSPTNQFLRVPQ", "down_seq": "TAPDISTVLGGKPSYQEHYT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser657" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38691-1.646.646", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.658.658", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.658.658", "start_pos": 658, "end_pos": 658, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "PNARNHHVSPTNQFLRVPQS", "down_seq": "APDISTVLGGKPSYQEHYTQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr658" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38691-1.646.646", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.657.657", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "FKLEDDGQYDGPQDDENDCD", "down_seq": "SDCDDDEDTKVDTDRHENEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38691-1.71.71", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "KLEDDGQYDGPQDDENDCDS", "down_seq": "DCDDDEDTKVDTDRHENENG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser71" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38691-1.70.70", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.814.814", "start_pos": 814, "end_pos": 814, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Ksp1-dependent phosphorylation of eIF4G modulates post-transcriptional regulation of specific mRNAs under glucose deprivation conditions.", "journal": "Nucleic acids research", "date": "2018-04-06", "authors": "Chang Yeonji, Huh Won-Ki", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "29438499", "url": "https://glygen.org/publication/PubMed/29438499" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "29438499", "url": "https://glygen.org/publication/PubMed/29438499", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSSGPIDPILTGNIGNRYSH", "down_seq": "SDSKELEQERRLSMEQKFKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "29438499", "url": "https://glygen.org/publication/PubMed/29438499" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" } ], "site_lbl": "Ser814" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38691-1.795.795", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38691-1.796.796", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.815.815", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38691-1.817.817", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38691-1.827.827", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.815.815", "start_pos": 815, "end_pos": 815, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "SSGPIDPILTGNIGNRYSHS", "down_seq": "DSKELEQERRLSMEQKFKNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser815" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38691-1.795.795", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38691-1.796.796", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.814.814", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38691-1.817.817", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38691-1.827.827", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.817.817", "start_pos": 817, "end_pos": 817, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "GPIDPILTGNIGNRYSHSSD", "down_seq": "KELEQERRLSMEQKFKNGVY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser817" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38691-1.814.814", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38691-1.815.815", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38691-1.827.827", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.827.827", "start_pos": 827, "end_pos": 827, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Ksp1 kinase regulates autophagy via the target of rapamycin complex 1 (TORC1) pathway.", "journal": "The Journal of biological chemistry", "date": "2012-05-11", "authors": "Umekawa Midori, Klionsky Daniel J", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937", "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": "IGNRYSHSSDSKELEQERRL", "down_seq": "MEQKFKNGVYVPPHHRKSFN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937" }, { "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": "Ser827" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38691-1.814.814", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38691-1.815.815", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38691-1.817.817", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38691-1.845.845", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.845.845", "start_pos": 845, "end_pos": 845, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "RLSMEQKFKNGVYVPPHHRK", "down_seq": "FNLGTQVPPMNMKTSNEATL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser845" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38691-1.827.827", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38691-1.850.850", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.850.850", "start_pos": 850, "end_pos": 850, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "QKFKNGVYVPPHHRKSFNLG", "down_seq": "QVPPMNMKTSNEATLSVSHN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr850" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38691-1.845.845", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.871.871", "start_pos": 871, "end_pos": 871, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "QVPPMNMKTSNEATLSVSHN", "down_seq": "VNFGGSYNSRRSSANESNPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser871" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P38691-1.883.883", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38691-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38691-1.888.888", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.883.883", "start_pos": 883, "end_pos": 883, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "ATLSVSHNSVNFGGSYNSRR", "down_seq": "SANESNPLHMNKALEKLSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser883" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38691-1.871.871", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38691-1.888.888", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38691-1.902.902", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38691-1.903.903", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.884.884", "start_pos": 884, "end_pos": 884, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "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": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Ksp1 kinase regulates autophagy via the target of rapamycin complex 1 (TORC1) pathway.", "journal": "The Journal of biological chemistry", "date": "2012-05-11", "authors": "Umekawa Midori, Klionsky Daniel J", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937", "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": "TLSVSHNSVNFGGSYNSRRS", "down_seq": "ANESNPLHMNKALEKLSSSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "22447937", "url": "https://glygen.org/publication/PubMed/22447937" }, { "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": "Ser884" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38691-1.871.871", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.883.883", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38691-1.888.888", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38691-1.902.902", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38691-1.903.903", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.888.888", "start_pos": 888, "end_pos": 888, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "SHNSVNFGGSYNSRRSSANE", "down_seq": "NPLHMNKALEKLSSSPGAKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser888" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38691-1.871.871", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38691-1.883.883", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38691-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38691-1.902.902", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38691-1.903.903", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38691-1.908.908", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.902.902", "start_pos": 902, "end_pos": 902, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "RSSANESNPLHMNKALEKLS", "down_seq": "SPGAKSSFVGFPKPLLPRNH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser902" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38691-1.883.883", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38691-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38691-1.888.888", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.903.903", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38691-1.908.908", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38691-1.909.909", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.903.903", "start_pos": 903, "end_pos": 903, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "SSANESNPLHMNKALEKLSS", "down_seq": "PGAKSSFVGFPKPLLPRNHS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "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": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser903" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38691-1.883.883", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38691-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38691-1.888.888", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.902.902", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38691-1.908.908", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38691-1.909.909", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.908.908", "start_pos": 908, "end_pos": 908, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "SNPLHMNKALEKLSSSPGAK", "down_seq": "SFVGFPKPLLPRNHSSTTIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser908" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38691-1.888.888", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38691-1.902.902", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38691-1.903.903", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.909.909", "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": "P38691-1.909.909", "start_pos": 909, "end_pos": 909, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "NPLHMNKALEKLSSSPGAKS", "down_seq": "FVGFPKPLLPRNHSSTTIAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser909" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38691-1.902.902", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38691-1.903.903", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.908.908", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.954.954", "start_pos": 954, "end_pos": 954, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "VFADSNNDAIIFEDEEYEGE", "down_seq": "DKMAHGKMEGGDNESSSTSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser954" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P38691-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38691-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38691-1.971.971", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38691-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38691-1.973.973", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.969.969", "start_pos": 969, "end_pos": 969, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "EYEGESDKMAHGKMEGGDNE", "down_seq": "SSTSPDERQIFGPYEIYAQT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser969" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38691-1.954.954", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38691-1.971.971", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38691-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38691-1.973.973", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.970.970", "start_pos": 970, "end_pos": 970, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "YEGESDKMAHGKMEGGDNES", "down_seq": "STSPDERQIFGPYEIYAQTF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser970" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38691-1.954.954", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.971.971", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38691-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38691-1.973.973", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.971.971", "start_pos": 971, "end_pos": 971, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "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": "EGESDKMAHGKMEGGDNESS", "down_seq": "TSPDERQIFGPYEIYAQTFA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser971" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38691-1.954.954", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38691-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38691-1.973.973", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38691-1.972.972", "start_pos": 972, "end_pos": 972, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" }, { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "GESDKMAHGKMEGGDNESSS", "down_seq": "SPDERQIFGPYEIYAQTFAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr972" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38691-1.954.954", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38691-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38691-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.971.971", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38691-1.973.973", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.973.973", "start_pos": 973, "end_pos": 973, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "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": "ESDKMAHGKMEGGDNESSST", "down_seq": "PDERQIFGPYEIYAQTFAGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" }, { "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": "Ser973" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38691-1.954.954", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38691-1.969.969", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38691-1.970.970", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38691-1.971.971", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38691-1.972.972", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38691-1.99.99", "start_pos": 99, "end_pos": 99, "uniprot_canonical_ac": "P38691-1", "length": 1029, "uniprot_id": "KSP1_YEAST", "protein_name": "Serine/threonine-protein kinase KSP1", "refseq_ac": "NP_011950", "refseq_name": "putative serine/threonine protein kinase KSP1", "gene_name": "KSP1", "gene_names_uniprotkb": "KSP1", "gene_names_refseq": "KSP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38691", "url": "https://www.uniprot.org/uniprotkb/P38691" } ], "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": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TKVDTDRHENENGNASSNNG", "down_seq": "SREKKHNLYKHKKSLISSKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38691" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001124", "url": "https://www.yeastgenome.org/locus/S000001124" } ], "site_lbl": "Ser99" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "796", "end_pos": "796" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "501", "end_pos": "501" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "539", "end_pos": "539" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "565", "end_pos": "565" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "624", "end_pos": "624" }, { "start_pos": "626", "end_pos": "626" }, { "start_pos": "627", "end_pos": "627" }, { "start_pos": "631", "end_pos": "631" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "827", "end_pos": "827" }, { "start_pos": "845", "end_pos": "845" }, { "start_pos": "850", "end_pos": "850" }, { "start_pos": "871", "end_pos": "871" }, { "start_pos": "883", "end_pos": "883" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "888", "end_pos": "888" }, { "start_pos": "902", "end_pos": "902" }, { "start_pos": "903", "end_pos": "903" }, { "start_pos": "908", "end_pos": "908" }, { "start_pos": "909", "end_pos": "909" }, { "start_pos": "954", "end_pos": "954" }, { "start_pos": "969", "end_pos": "969" }, { "start_pos": "970", "end_pos": "970" }, { "start_pos": "971", "end_pos": "971" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P38691-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38691-1.117.117", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.108.109", "start_pos": 108, "end_pos": 109, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "EH", "start_aa": "E", "up_seq": "SMELIWSYVLNEVLQLQNIG", "down_seq": "PLLITEAPMNPLKNREQMAQ", "mutagenesis": [ { "sequence_org": "EH", "sequence_mut": "AA", "comment": "Reduces nuclear migration in mitosis.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "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": "P38696-1.133.133", "start_pos": 133, "end_pos": 133, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "ITEAPMNPLKNREQMAQVLF", "down_seq": "TFDVSALYVSNPAVLSLYAS", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "Lethal. Strongly reduces interaction with JNM1; when associated with A-136.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38696-1.136.136", "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": "P38696-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "APMNPLKNREQMAQVLFETF", "down_seq": "VSALYVSNPAVLSLYASGRT", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Lethal. Strongly reduces interaction with JNM1; when associated with A-133.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38696-1.133.133", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.162.162", "start_pos": 162, "end_pos": 162, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "VSNPAVLSLYASGRTTGCVV", "down_seq": "CGEGYCSTVPIYDGFALPAS", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Reduces spindle formation. Reduces nuclear migration in mitosis; when associated with A-165.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38696-1.165.165", "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": "P38696-1.165.165", "start_pos": 165, "end_pos": 165, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "PAVLSLYASGRTTGCVVDCG", "down_seq": "GYCSTVPIYDGFALPASMMR", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "Reduces spindle formation. Reduces nuclear migration in mitosis; when associated with A-162.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38696-1.162.162", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38696-1.185.185", "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": "P38696-1.185.185", "start_pos": 185, "end_pos": 185, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "EGYCSTVPIYDGFALPASMM", "down_seq": "MDIGGADITEQLQFQLRKSA", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Temperature-sensitive. Strongly reduces interaction with JNM1; when associated with A-187.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38696-1.165.165", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38696-1.187.187", "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": "P38696-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "YCSTVPIYDGFALPASMMRM", "down_seq": "IGGADITEQLQFQLRKSAGV", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Temperature-sensitive. Strongly reduces interaction with JNM1; when associated with A-185.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38696-1.185.185", "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": "P38696-1.214.216", "start_pos": 214, "end_pos": 216, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "ERE", "start_aa": "E", "up_seq": "TEQLQFQLRKSAGVSLFSSS", "down_seq": "IVRTMKEKVCYLAKNIKKEE", "mutagenesis": [ { "sequence_org": "ERE", "sequence_mut": "AAA", "comment": "Lethal. Reduces spindle formation. Reduces nuclear migration in mitosis. Alters complex assembly; when associated with A-219.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38696-1.219.219", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38696-1.222.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38696-1.233.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38696-1.233.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38696-1.236.238", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.219.219", "start_pos": 219, "end_pos": 219, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "FQLRKSAGVSLFSSSEREIV", "down_seq": "TMKEKVCYLAKNIKKEEEKY", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Lethal; when associated with 214-A--A-216.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38696-1.214.216", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38696-1.222.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38696-1.233.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38696-1.233.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38696-1.236.238", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.222.224", "start_pos": 222, "end_pos": 224, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KEK", "start_aa": "K", "up_seq": "RKSAGVSLFSSSEREIVRTM", "down_seq": "VCYLAKNIKKEEEKYLQGTQ", "mutagenesis": [ { "sequence_org": "KEK", "sequence_mut": "AAA", "comment": "Lethal. Reduces spindle formation. Reduces nuclear migration in mitosis.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38696-1.214.216", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38696-1.219.219", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38696-1.233.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38696-1.233.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38696-1.236.238", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.233.235", "start_pos": 233, "end_pos": 235, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KKE", "start_aa": "K", "up_seq": "SEREIVRTMKEKVCYLAKNI", "down_seq": "EEKYLQGTQDLISTFKLPDG", "mutagenesis": [ { "sequence_org": "KKE", "sequence_mut": "AAA", "comment": "Reduces spindle formation.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38696-1.214.216", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38696-1.219.219", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38696-1.222.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38696-1.233.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38696-1.236.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38696-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38696-1.254.254", "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": "P38696-1.233.238", "start_pos": 233, "end_pos": 238, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KKEEEK", "start_aa": "K", "up_seq": "SEREIVRTMKEKVCYLAKNI", "down_seq": "YLQGTQDLISTFKLPDGRCI", "mutagenesis": [ { "sequence_org": "KKEEEK", "sequence_mut": "AAAAAA", "comment": "Temperature-sensitive. Strongly reduces interaction with JNM1.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38696-1.214.216", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38696-1.219.219", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38696-1.222.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38696-1.233.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38696-1.236.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38696-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38696-1.254.254", "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": "P38696-1.236.238", "start_pos": 236, "end_pos": 238, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "EEK", "start_aa": "E", "up_seq": "EIVRTMKEKVCYLAKNIKKE", "down_seq": "YLQGTQDLISTFKLPDGRCI", "mutagenesis": [ { "sequence_org": "EEK", "sequence_mut": "AAA", "comment": "Reduces spindle formation.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38696-1.214.216", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38696-1.219.219", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38696-1.222.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38696-1.233.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38696-1.233.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38696-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38696-1.254.254", "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": "P38696-1.251.251", "start_pos": 251, "end_pos": 251, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "NIKKEEEKYLQGTQDLISTF", "down_seq": "LPDGRCIEVGNDRYRAPEIL", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Lethal and dominant cold-sensitive. Reduces nuclear migration in mitosis; when associated with A-254.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38696-1.233.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38696-1.233.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38696-1.236.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38696-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38696-1.263.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38696-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38696-1.269.269", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.254.254", "start_pos": 254, "end_pos": 254, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "KEEEKYLQGTQDLISTFKLP", "down_seq": "GRCIEVGNDRYRAPEILFSP", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Lethal and dominant cold-sensitive. Reduces nuclear migration in mitosis; when associated with A-251.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38696-1.233.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38696-1.233.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38696-1.236.238", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38696-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38696-1.263.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38696-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38696-1.269.269", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.263.264", "start_pos": 263, "end_pos": 264, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "DR", "start_aa": "D", "up_seq": "TQDLISTFKLPDGRCIEVGN", "down_seq": "YRAPEILFSPQIIGLGYDGL", "mutagenesis": [ { "sequence_org": "DR", "sequence_mut": "AA", "comment": "Reduces spindle formation.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38696-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38696-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38696-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38696-1.269.269", "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": "P38696-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "LISTFKLPDGRCIEVGNDRY", "down_seq": "APEILFSPQIIGLGYDGLSD", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Lethal. Reduces spindle formation. Reduces nuclear migration in mitosis; when associated with A-269.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38696-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38696-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38696-1.263.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38696-1.269.269", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.269.269", "start_pos": 269, "end_pos": 269, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "TFKLPDGRCIEVGNDRYRAP", "down_seq": "ILFSPQIIGLGYDGLSDMCM", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "Lethal. Reduces spindle formation. Reduces nuclear migration in mitosis; when associated with A-266.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38696-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38696-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38696-1.263.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38696-1.266.266", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.294.294", "start_pos": 294, "end_pos": 294, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "PQIIGLGYDGLSDMCMQSIW", "down_seq": "VDLDLRKPLLSSIILSGGTT", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Reduces nuclear migration in mitosis; when associated with A-296 and A-298.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38696-1.296.296", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38696-1.298.298", "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": "P38696-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "IIGLGYDGLSDMCMQSIWKV", "down_seq": "LDLRKPLLSSIILSGGTTTL", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Reduces nuclear migration in mitosis; when associated with A-294 and A-298.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38696-1.294.294", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38696-1.298.298", "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": "P38696-1.298.298", "start_pos": 298, "end_pos": 298, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "GLGYDGLSDMCMQSIWKVDL", "down_seq": "LRKPLLSSIILSGGTTTLKG", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Reduces nuclear migration in mitosis; when associated with A-294 and A-296.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38696-1.294.294", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38696-1.296.296", "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": "P38696-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "M", "down_seq": "QLSDSYALYNQPVVIDNGSG", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Temperature-sensitive; when associated with A-6.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38696-1.6.6", "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": "P38696-1.321.322", "start_pos": 321, "end_pos": 322, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "DR", "start_aa": "D", "up_seq": "KPLLSSIILSGGTTTLKGFG", "down_seq": "MLWDLEALTKGTSKIKIIAP", "mutagenesis": [ { "sequence_org": "DR", "sequence_mut": "AA", "comment": "Lethal. Strongly reduces interaction with JNM1.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38696-1.326.326", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38696-1.328.328", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38696-1.336.336", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38696-1.338.338", "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": "P38696-1.326.326", "start_pos": 326, "end_pos": 326, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "SIILSGGTTTLKGFGDRMLW", "down_seq": "LEALTKGTSKIKIIAPSERK", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Temperature-sensitive. Reduces nuclear migration in mitosis. Strongly reduces interaction with JNM1; when associated with A-328.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38696-1.321.322", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38696-1.328.328", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38696-1.336.336", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38696-1.338.338", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38696-1.344.346", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.328.328", "start_pos": 328, "end_pos": 328, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "ILSGGTTTLKGFGDRMLWDL", "down_seq": "ALTKGTSKIKIIAPSERKYT", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "Temperature-sensitive. Reduces nuclear migration in mitosis. Strongly reduces interaction with JNM1; when associated with A-326.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38696-1.321.322", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38696-1.326.326", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38696-1.336.336", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38696-1.338.338", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38696-1.344.346", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.336.336", "start_pos": 336, "end_pos": 336, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "LKGFGDRMLWDLEALTKGTS", "down_seq": "IKIIAPSERKYTTWIGGSIL", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Strongly reduces interaction with JNM1; when associated with A-338.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38696-1.321.322", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38696-1.326.326", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38696-1.328.328", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38696-1.338.338", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38696-1.344.346", "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": "P38696-1.338.338", "start_pos": 338, "end_pos": 338, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "GFGDRMLWDLEALTKGTSKI", "down_seq": "IIAPSERKYTTWIGGSILTG", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Strongly reduces interaction with JNM1; when associated with A-336.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38696-1.321.322", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38696-1.326.326", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38696-1.328.328", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38696-1.336.336", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38696-1.344.346", "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": "P38696-1.344.346", "start_pos": 344, "end_pos": 346, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "ERK", "start_aa": "E", "up_seq": "LWDLEALTKGTSKIKIIAPS", "down_seq": "YTTWIGGSILTGLSTFQRLW", "mutagenesis": [ { "sequence_org": "ERK", "sequence_mut": "AAA", "comment": "Temperature-sensitive. Reduces nuclear migration in mitosis. Strongly reduces interaction with JNM1.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38696-1.326.326", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38696-1.328.328", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38696-1.336.336", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38696-1.338.338", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.368.369", "start_pos": 368, "end_pos": 369, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KK", "start_aa": "K", "up_seq": "TTWIGGSILTGLSTFQRLWT", "down_seq": "SDWLEDSTRVYSNLM", "mutagenesis": [ { "sequence_org": "KK", "sequence_mut": "AA", "comment": "Reduces nuclear migration in mitosis; when associated with A-371.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "upstream", "id": "P38696-1.369.369", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38696-1.371.371", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38696-1.374.375", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38696-1.378.378", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.369.369", "start_pos": 369, "end_pos": 369, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "TWIGGSILTGLSTFQRLWTK", "down_seq": "SDWLEDSTRVYSNLM", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Lethal. Strongly reduces interaction with JNM1; when associated with A-371.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "downstream", "id": "P38696-1.368.369", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38696-1.371.371", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38696-1.374.375", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38696-1.378.378", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.371.371", "start_pos": 371, "end_pos": 371, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "IGGSILTGLSTFQRLWTKKS", "down_seq": "WLEDSTRVYSNLM", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "AA", "comment": "Reduces nuclear migration in mitosis; when associated with 368-A-A-369.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] }, { "sequence_org": "D", "sequence_mut": "A", "comment": "Lethal. Strongly reduces interaction with JNM1; when associated with A-369.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38696-1.368.369", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38696-1.369.369", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38696-1.374.375", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38696-1.378.378", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.374.375", "start_pos": 374, "end_pos": 375, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "ED", "start_aa": "E", "up_seq": "SILTGLSTFQRLWTKKSDWL", "down_seq": "STRVYSNLM", "mutagenesis": [ { "sequence_org": "ED", "sequence_mut": "AA", "comment": "Temperature-sensitive. Reduces nuclear migration in mitosis. Strongly reduces interaction with JNM1; when associated with A-378.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38696-1.368.369", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38696-1.369.369", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38696-1.371.371", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38696-1.378.378", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.378.378", "start_pos": 378, "end_pos": 378, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "GLSTFQRLWTKKSDWLEDST", "down_seq": "VYSNLM", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Temperature-sensitive. Reduces nuclear migration in mitosis. Strongly reduces interaction with JNM1; when associated with 374-A-A-375.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38696-1.368.369", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38696-1.369.369", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38696-1.371.371", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38696-1.374.375", "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": "P38696-1.46.46", "start_pos": 46, "end_pos": 46, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] }, { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "AGFSGEERPKALEYCLVGNT", "down_seq": "YDKVMLEGLQGDTFIGNNAQ", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Strongly reduces interaction with JNM1. Reduces nuclear migration in mitosis; when associated with 48-A-A-49.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38696-1.48.49", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.48.49", "start_pos": 48, "end_pos": 49, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "DK", "start_aa": "D", "up_seq": "FSGEERPKALEYCLVGNTKY", "down_seq": "VMLEGLQGDTFIGNNAQKLR", "mutagenesis": [ { "sequence_org": "DK", "sequence_mut": "AA", "comment": "Strongly reduces interaction with JNM1. Reduces nuclear migration in mitosis; when associated with A-46.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38696-1.46.46", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "MDQLS", "down_seq": "SYALYNQPVVIDNGSGIIKA", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Temperature-sensitive; when associated with A-2.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38696-1.2.2", "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": "P38696-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "EGLQGDTFIGNNAQKLRGLL", "down_seq": "LRYPIKHGVVEDWDSMELIW", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Reduces spindle formation; when associated with A-75.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38696-1.75.75", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38696-1.79.80", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38696-1.84.85", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38696-1.87.87", "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": "P38696-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "LQGDTFIGNNAQKLRGLLKL", "down_seq": "YPIKHGVVEDWDSMELIWSY", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Reduces spindle formation; when associated with A-73.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38696-1.73.73", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38696-1.79.80", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38696-1.84.85", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38696-1.87.87", "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": "P38696-1.79.80", "start_pos": 79, "end_pos": 80, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KH", "start_aa": "K", "up_seq": "TFIGNNAQKLRGLLKLRYPI", "down_seq": "GVVEDWDSMELIWSYVLNEV", "mutagenesis": [ { "sequence_org": "KH", "sequence_mut": "AA", "comment": "Reduces nuclear migration in mitosis.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38696-1.73.73", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38696-1.75.75", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38696-1.84.85", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38696-1.87.87", "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": "P38696-1.84.85", "start_pos": 84, "end_pos": 85, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] }, { "title": "Alanine scanning of Arp1 delineates a putative binding site for Jnm1/dynamitin and Nip100/p150Glued.", "journal": "Molecular biology of the cell", "date": "2005-09", "authors": "Clark Sean W, Rose Mark D", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "ED", "start_aa": "E", "up_seq": "NAQKLRGLLKLRYPIKHGVV", "down_seq": "WDSMELIWSYVLNEVLQLQN", "mutagenesis": [ { "sequence_org": "ED", "sequence_mut": "AA", "comment": "Reduces spindle formation. Strongly reduces interaction with JNM1. Reduces nuclear migration in mitosis; when associated with A-87.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" }, { "database": "PubMed", "id": "15975903", "url": "https://glygen.org/publication/PubMed/15975903" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38696-1.73.73", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38696-1.75.75", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38696-1.79.80", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38696-1.87.87", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38696-1.87.87", "start_pos": 87, "end_pos": 87, "uniprot_canonical_ac": "P38696-1", "length": 384, "uniprot_id": "ARP1_YEAST", "protein_name": "Centractin", "refseq_ac": "NP_011997", "refseq_name": "actin-related protein 1", "gene_name": "ARP1", "gene_names_uniprotkb": "ARP1; ACT3; ACT5", "gene_names_refseq": "ACT5; ARP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Molecular dissection of ARP1 regions required for nuclear migration and cell wall integrity checkpoint functions in Saccharomyces cerevisiae.", "journal": "Cell structure and function", "date": "2005", "authors": "Igarashi R, Suzuki M, Nogami S, Ohya Y", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" } ], "reference": [ { "type": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "crossref": [ { "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "KLRGLLKLRYPIKHGVVEDW", "down_seq": "SMELIWSYVLNEVLQLQNIG", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Reduces spindle formation. Reduces nuclear migration in mitosis; when associated with 84-A-A-85.", "evidence": [ { "database": "UniProtKB", "id": "P38696", "url": "https://www.uniprot.org/uniprotkb/P38696" }, { "database": "PubMed", "id": "16415535", "url": "https://glygen.org/publication/PubMed/16415535" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "108", "end_pos": "109" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "214", "end_pos": "216" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "222", "end_pos": "224" }, { "start_pos": "233", "end_pos": "235" }, { "start_pos": "233", "end_pos": "238" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "263", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "321", "end_pos": "322" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "344", "end_pos": "346" }, { "start_pos": "368", "end_pos": "369" }, { "start_pos": "369", "end_pos": "369" }, { "start_pos": "371", "end_pos": "371" }, { "start_pos": "374", "end_pos": "375" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "48", "end_pos": "49" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "79", "end_pos": "80" }, { "start_pos": "84", "end_pos": "85" }, { "start_pos": "87", "end_pos": "87" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38696-1.73.73", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38696-1.75.75", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38696-1.79.80", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38696-1.84.85", "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": "P38700-1.551.551", "start_pos": 551, "end_pos": 551, "uniprot_canonical_ac": "P38700-1", "length": 605, "uniprot_id": "APM2_YEAST", "protein_name": "Adaptin medium chain homolog APM2", "refseq_ac": "NP_011844", "refseq_name": "Apm2p", "gene_name": "APM2", "gene_names_uniprotkb": "APM2", "gene_names_refseq": "APM2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38700", "url": "https://www.uniprot.org/uniprotkb/P38700" } ], "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": "TGPRLEELYRQVHDQQTSHV", "down_seq": "PRDKLVNIDFEIPYCTCSGL", "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": "Thr551", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "551", "end_pos": "551" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "275", "end_pos": "275" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] } ], "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": "P38700-1.273.273", "start_pos": 273, "end_pos": 273, "uniprot_canonical_ac": "P38700-1", "length": 605, "uniprot_id": "APM2_YEAST", "protein_name": "Adaptin medium chain homolog APM2", "refseq_ac": "NP_011844", "refseq_name": "Apm2p", "gene_name": "APM2", "gene_names_uniprotkb": "APM2", "gene_names_refseq": "APM2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38700", "url": "https://www.uniprot.org/uniprotkb/P38700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The alternate AP-1 adaptor subunit Apm2 interacts with the Mil1 regulatory protein and confers differential cargo sorting.", "journal": "Molecular biology of the cell", "date": "2016-02-01", "authors": "Whitfield Shawn T, Burston Helen E, Bean Bj\u00f6rn D M, Raghuram Nandini, Maldonado-B\u00e1ez Lymarie, Davey Michael, Wendland Beverly, Conibear Elizabeth", "evidence": [ { "database": "UniProtKB", "id": "P38700", "url": "https://www.uniprot.org/uniprotkb/P38700" } ], "reference": [ { "type": "PubMed", "id": "26658609", "url": "https://glygen.org/publication/PubMed/26658609" } ] } ], "crossref": [ { "id": "P38700", "url": "https://www.uniprot.org/uniprotkb/P38700", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "26658609", "url": "https://glygen.org/publication/PubMed/26658609", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "TIIMPISWRTKGIHYAKNEF", "down_seq": "LDVIERVQYLMDFEKGVIRK", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "A", "comment": "Leads to sensitivity to sertraline, when associated with S-275.", "evidence": [ { "database": "UniProtKB", "id": "P38700", "url": "https://www.uniprot.org/uniprotkb/P38700" }, { "database": "PubMed", "id": "26658609", "url": "https://glygen.org/publication/PubMed/26658609" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "551", "end_pos": "551" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "275", "end_pos": "275" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38700-1.275.275", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38700-1.275.275", "start_pos": 275, "end_pos": 275, "uniprot_canonical_ac": "P38700-1", "length": 605, "uniprot_id": "APM2_YEAST", "protein_name": "Adaptin medium chain homolog APM2", "refseq_ac": "NP_011844", "refseq_name": "Apm2p", "gene_name": "APM2", "gene_names_uniprotkb": "APM2", "gene_names_refseq": "APM2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38700", "url": "https://www.uniprot.org/uniprotkb/P38700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The alternate AP-1 adaptor subunit Apm2 interacts with the Mil1 regulatory protein and confers differential cargo sorting.", "journal": "Molecular biology of the cell", "date": "2016-02-01", "authors": "Whitfield Shawn T, Burston Helen E, Bean Bj\u00f6rn D M, Raghuram Nandini, Maldonado-B\u00e1ez Lymarie, Davey Michael, Wendland Beverly, Conibear Elizabeth", "evidence": [ { "database": "UniProtKB", "id": "P38700", "url": "https://www.uniprot.org/uniprotkb/P38700" } ], "reference": [ { "type": "PubMed", "id": "26658609", "url": "https://glygen.org/publication/PubMed/26658609" } ] } ], "crossref": [ { "id": "P38700", "url": "https://www.uniprot.org/uniprotkb/P38700", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "26658609", "url": "https://glygen.org/publication/PubMed/26658609", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "IMPISWRTKGIHYAKNEFFL", "down_seq": "VIERVQYLMDFEKGVIRKNL", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "S", "comment": "Leads to sensitivity to sertraline, when associated with A-273.", "evidence": [ { "database": "UniProtKB", "id": "P38700", "url": "https://www.uniprot.org/uniprotkb/P38700" }, { "database": "PubMed", "id": "26658609", "url": "https://glygen.org/publication/PubMed/26658609" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "551", "end_pos": "551" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "275", "end_pos": "275" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38700-1.273.273", "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": "P38700-1.352.352", "start_pos": 352, "end_pos": 352, "uniprot_canonical_ac": "P38700-1", "length": 605, "uniprot_id": "APM2_YEAST", "protein_name": "Adaptin medium chain homolog APM2", "refseq_ac": "NP_011844", "refseq_name": "Apm2p", "gene_name": "APM2", "gene_names_uniprotkb": "APM2", "gene_names_refseq": "APM2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38700", "url": "https://www.uniprot.org/uniprotkb/P38700" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38700" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38700" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001011", "url": "https://www.yeastgenome.org/locus/S000001011", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38700", "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": "FHQCVSLDSINTIEKDEEKN", "down_seq": "DDDAGLQAATDAREIEFIPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001011", "url": "https://www.yeastgenome.org/locus/S000001011" }, { "database": "iPTMnet", "id": "P38700", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38700" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser352" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "551", "end_pos": "551" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "273", "end_pos": "273" }, { "start_pos": "275", "end_pos": "275" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "352", "end_pos": "352" } ] } ], "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": "P38703-1.103.103", "start_pos": 103, "end_pos": 103, "uniprot_canonical_ac": "P38703-1", "length": 411, "uniprot_id": "LAG1_YEAST", "protein_name": "Ceramide synthase LAG1", "refseq_ac": "NP_011860", "refseq_name": "sphingosine N-acyltransferase LAG1", "gene_name": "LAG1", "gene_names_uniprotkb": "LAG1", "gene_names_refseq": "LAG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "SWLTPFFILVCVYSAYFLSG", "down_seq": "RTESNPLHMFVAISYQVDGT", "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": "Asn103", "evidence": [ { "id": "P38703", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/P38703#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "103", "end_pos": "103" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "23", "end_pos": "24" }, { "start_pos": "255", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "8", "end_pos": "8" } ] } ], "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": "P38703-1.23.24", "start_pos": 23, "end_pos": 24, "uniprot_canonical_ac": "P38703-1", "length": 411, "uniprot_id": "LAG1_YEAST", "protein_name": "Ceramide synthase LAG1", "refseq_ac": "NP_011860", "refseq_name": "sphingosine N-acyltransferase LAG1", "gene_name": "LAG1", "gene_names_uniprotkb": "LAG1", "gene_names_refseq": "LAG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of sphingolipid biosynthesis in the endoplasmic reticulum via signals from the plasma membrane in budding yeast.", "journal": "The FEBS journal", "date": "2022-01", "authors": "Ishino Yuko, Komatsu Nao, Sakata Ken-Taro, Yoshikawa Daichi, Tani Motohiro, Maeda Tatsuya, Morishige Kanta, Yoshizawa Koushiro, Tanaka Naotaka, Tabuchi Mitsuaki", "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "reference": [ { "type": "PubMed", "id": "34492164", "url": "https://glygen.org/publication/PubMed/34492164" } ] } ], "crossref": [ { "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "34492164", "url": "https://glygen.org/publication/PubMed/34492164", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "SS", "start_aa": "S", "up_seq": "SATDKSIDRLVVNAKTRRRN", "down_seq": "VGKIDLGDTVPGFAAMPESA", "mutagenesis": [ { "sequence_org": "SS", "sequence_mut": "AA", "comment": "Exhibits higher sensitivity to myriocin disruption of sphingolipid synthesis in a LIP1 mutant background.", "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" }, { "database": "PubMed", "id": "34492164", "url": "https://glygen.org/publication/PubMed/34492164" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "103", "end_pos": "103" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "23", "end_pos": "24" }, { "start_pos": "255", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38703-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38703-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 0, "direction": "upstream", "id": "P38703-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38703-1.33.33", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38703-1.255.256", "start_pos": 255, "end_pos": 256, "uniprot_canonical_ac": "P38703-1", "length": 411, "uniprot_id": "LAG1_YEAST", "protein_name": "Ceramide synthase LAG1", "refseq_ac": "NP_011860", "refseq_name": "sphingosine N-acyltransferase LAG1", "gene_name": "LAG1", "gene_names_uniprotkb": "LAG1", "gene_names_refseq": "LAG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "HH", "start_aa": "H", "up_seq": "ACVLVLQLEKPRKDYKELVF", "down_seq": "IVTLLLIWSSYVFHFTKMGL", "mutagenesis": [ { "sequence_org": "HH", "sequence_mut": "AA", "comment": "Abolishes the enzymatic activity of the LAG1-LIP1 complex.", "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "103", "end_pos": "103" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "23", "end_pos": "24" }, { "start_pos": "255", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "8", "end_pos": "8" } ] } ], "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": "P38703-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P38703-1", "length": 411, "uniprot_id": "LAG1_YEAST", "protein_name": "Ceramide synthase LAG1", "refseq_ac": "NP_011860", "refseq_name": "sphingosine N-acyltransferase LAG1", "gene_name": "LAG1", "gene_names_uniprotkb": "LAG1", "gene_names_refseq": "LAG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of sphingolipid biosynthesis in the endoplasmic reticulum via signals from the plasma membrane in budding yeast.", "journal": "The FEBS journal", "date": "2022-01", "authors": "Ishino Yuko, Komatsu Nao, Sakata Ken-Taro, Yoshikawa Daichi, Tani Motohiro, Maeda Tatsuya, Morishige Kanta, Yoshizawa Koushiro, Tanaka Naotaka, Tabuchi Mitsuaki", "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "reference": [ { "type": "PubMed", "id": "34492164", "url": "https://glygen.org/publication/PubMed/34492164" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" }, { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "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": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "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": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "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": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "34492164", "url": "https://glygen.org/publication/PubMed/34492164", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000995", "url": "https://www.yeastgenome.org/locus/S000000995", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SATDKSIDRLVVNAKTRRRN", "down_seq": "SVGKIDLGDTVPGFAAMPES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" }, { "database": "PubMed", "id": "34492164", "url": "https://glygen.org/publication/PubMed/34492164" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000995", "url": "https://www.yeastgenome.org/locus/S000000995" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser23" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "103", "end_pos": "103" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "23", "end_pos": "24" }, { "start_pos": "255", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38703-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38703-1.23.24", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38703-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38703-1.33.33", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38703-1.24.24", "start_pos": 24, "end_pos": 24, "uniprot_canonical_ac": "P38703-1", "length": 411, "uniprot_id": "LAG1_YEAST", "protein_name": "Ceramide synthase LAG1", "refseq_ac": "NP_011860", "refseq_name": "sphingosine N-acyltransferase LAG1", "gene_name": "LAG1", "gene_names_uniprotkb": "LAG1", "gene_names_refseq": "LAG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "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": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" }, { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Regulation of sphingolipid biosynthesis in the endoplasmic reticulum via signals from the plasma membrane in budding yeast.", "journal": "The FEBS journal", "date": "2022-01", "authors": "Ishino Yuko, Komatsu Nao, Sakata Ken-Taro, Yoshikawa Daichi, Tani Motohiro, Maeda Tatsuya, Morishige Kanta, Yoshizawa Koushiro, Tanaka Naotaka, Tabuchi Mitsuaki", "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "reference": [ { "type": "PubMed", "id": "34492164", "url": "https://glygen.org/publication/PubMed/34492164" } ] }, { "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": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" }, { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "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": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "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": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" }, { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "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": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "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": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "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": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34492164", "url": "https://glygen.org/publication/PubMed/34492164", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000995", "url": "https://www.yeastgenome.org/locus/S000000995", "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": "ATDKSIDRLVVNAKTRRRNS", "down_seq": "VGKIDLGDTVPGFAAMPESA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "34492164", "url": "https://glygen.org/publication/PubMed/34492164" }, { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000000995", "url": "https://www.yeastgenome.org/locus/S000000995" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser24" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "103", "end_pos": "103" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "23", "end_pos": "24" }, { "start_pos": "255", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38703-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 0, "direction": "downstream", "id": "P38703-1.23.24", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38703-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38703-1.33.33", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38703-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "P38703-1", "length": 411, "uniprot_id": "LAG1_YEAST", "protein_name": "Ceramide synthase LAG1", "refseq_ac": "NP_011860", "refseq_name": "sphingosine N-acyltransferase LAG1", "gene_name": "LAG1", "gene_names_uniprotkb": "LAG1", "gene_names_refseq": "LAG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "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": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000995", "url": "https://www.yeastgenome.org/locus/S000000995", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703", "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": "VVNAKTRRRNSSVGKIDLGD", "down_seq": "VPGFAAMPESAASKNEAKKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000995", "url": "https://www.yeastgenome.org/locus/S000000995" }, { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr33" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "103", "end_pos": "103" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "23", "end_pos": "24" }, { "start_pos": "255", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38703-1.23.24", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38703-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38703-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38703-1.46.46", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38703-1.46.46", "start_pos": 46, "end_pos": 46, "uniprot_canonical_ac": "P38703-1", "length": 411, "uniprot_id": "LAG1_YEAST", "protein_name": "Ceramide synthase LAG1", "refseq_ac": "NP_011860", "refseq_name": "sphingosine N-acyltransferase LAG1", "gene_name": "LAG1", "gene_names_uniprotkb": "LAG1", "gene_names_refseq": "LAG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "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": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" }, { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000995", "url": "https://www.yeastgenome.org/locus/S000000995", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GKIDLGDTVPGFAAMPESAA", "down_seq": "KNEAKKRMKALTGDSKKDSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000000995", "url": "https://www.yeastgenome.org/locus/S000000995" } ], "site_lbl": "Ser46" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "103", "end_pos": "103" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "23", "end_pos": "24" }, { "start_pos": "255", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38703-1.33.33", "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": "P38703-1.8.8", "start_pos": 8, "end_pos": 8, "uniprot_canonical_ac": "P38703-1", "length": 411, "uniprot_id": "LAG1_YEAST", "protein_name": "Ceramide synthase LAG1", "refseq_ac": "NP_011860", "refseq_name": "sphingosine N-acyltransferase LAG1", "gene_name": "LAG1", "gene_names_uniprotkb": "LAG1", "gene_names_refseq": "LAG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" } ], "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": "P38703", "url": "https://www.uniprot.org/uniprotkb/P38703" }, { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "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": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000995", "url": "https://www.yeastgenome.org/locus/S000000995", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703", "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": "MTSATDK", "down_seq": "IDRLVVNAKTRRRNSSVGKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000995", "url": "https://www.yeastgenome.org/locus/S000000995" }, { "database": "iPTMnet", "id": "P38703", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38703" }, { "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": "Ser8" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "103", "end_pos": "103" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "23", "end_pos": "24" }, { "start_pos": "255", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P38703-1.23.24", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38703-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38703-1.24.24", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.766.766", "start_pos": 766, "end_pos": 766, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "RPPVFAFFAEHLDWECSYTV", "down_seq": "PSQKFWGKSIELNNEGILRL", "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": "Thr766", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "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": "P38713-1.106.106", "start_pos": 106, "end_pos": 106, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "RSSQHSHSSSNGSDNKRKER", "down_seq": "YSSLSISGIQQQSQEIPLRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser106" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38713-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.108.108", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38713-1.111.111", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.107.107", "start_pos": 107, "end_pos": 107, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SSQHSHSSSNGSDNKRKERS", "down_seq": "SSLSISGIQQQSQEIPLREK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" } ], "site_lbl": "Tyr107" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38713-1.106.106", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.108.108", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38713-1.111.111", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.108.108", "start_pos": 108, "end_pos": 108, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "SQHSHSSSNGSDNKRKERSY", "down_seq": "SLSISGIQQQSQEIPLREKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "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": "Ser108" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38713-1.106.106", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.111.111", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38713-1.109.109", "start_pos": 109, "end_pos": 109, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "QHSHSSSNGSDNKRKERSYS", "down_seq": "LSISGIQQQSQEIPLREKLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser109" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38713-1.106.106", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38713-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.108.108", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.111.111", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "SHSSSNGSDNKRKERSYSSL", "down_seq": "ISGIQQQSQEIPLREKLSAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser111" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38713-1.106.106", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38713-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.108.108", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38713-1.109.109", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38713-1.182.182", "start_pos": 182, "end_pos": 182, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "AFILDNSSSKNAKKKILFNA", "down_seq": "VINGDNQSMISTRSTPPARP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser182" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P38713-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38713-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38713-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38713-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38713-1.197.197", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.190.190", "start_pos": 190, "end_pos": 190, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "SKNAKKKILFNASVINGDNQ", "down_seq": "MISTRSTPPARPTALSRTST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "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": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38713-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38713-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38713-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38713-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38713-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38713-1.206.206", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38713-1.208.208", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38713-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38713-1.210.210", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38713-1.193.193", "start_pos": 193, "end_pos": 193, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AKKKILFNASVINGDNQSMI", "down_seq": "TRSTPPARPTALSRTSTQQD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" } ], "site_lbl": "Ser193" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38713-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38713-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38713-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38713-1.206.206", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38713-1.208.208", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38713-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38713-1.210.210", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.194.194", "start_pos": 194, "end_pos": 194, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "KKKILFNASVINGDNQSMIS", "down_seq": "RSTPPARPTALSRTSTQQDM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr194" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38713-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38713-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38713-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38713-1.206.206", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38713-1.208.208", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38713-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38713-1.210.210", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.196.196", "start_pos": 196, "end_pos": 196, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "KILFNASVINGDNQSMISTR", "down_seq": "TPPARPTALSRTSTQQDMLF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser196" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38713-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38713-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38713-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38713-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38713-1.206.206", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38713-1.208.208", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38713-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38713-1.210.210", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.197.197", "start_pos": 197, "end_pos": 197, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ILFNASVINGDNQSMISTRS", "down_seq": "PPARPTALSRTSTQQDMLFR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "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" } ], "site_lbl": "Thr197" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38713-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38713-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38713-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38713-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38713-1.206.206", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38713-1.208.208", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38713-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38713-1.210.210", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38713-1.203.203", "start_pos": 203, "end_pos": 203, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "VINGDNQSMISTRSTPPARP", "down_seq": "ALSRTSTQQDMLFRVGQGRY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr203" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38713-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38713-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38713-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38713-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38713-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.206.206", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38713-1.208.208", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38713-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38713-1.210.210", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.206.206", "start_pos": 206, "end_pos": 206, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "GDNQSMISTRSTPPARPTAL", "down_seq": "RTSTQQDMLFRVGQGRYLQG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser206" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38713-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38713-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38713-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38713-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38713-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.208.208", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38713-1.210.210", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.208.208", "start_pos": 208, "end_pos": 208, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "NQSMISTRSTPPARPTALSR", "down_seq": "STQQDMLFRVGQGRYLQGYL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "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": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr208" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38713-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38713-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38713-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38713-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38713-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38713-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38713-1.206.206", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.209.209", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.210.210", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38713-1.209.209", "start_pos": 209, "end_pos": 209, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "QSMISTRSTPPARPTALSRT", "down_seq": "TQQDMLFRVGQGRYLQGYLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "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": "Ser209" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38713-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38713-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38713-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38713-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38713-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38713-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.206.206", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.208.208", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.210.210", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38713-1.210.210", "start_pos": 210, "end_pos": 210, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713", "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "SMISTRSTPPARPTALSRTS", "down_seq": "QQDMLFRVGQGRYLQGYLLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "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": "Thr210" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38713-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38713-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38713-1.194.194", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38713-1.196.196", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38713-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38713-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38713-1.206.206", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38713-1.208.208", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.209.209", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38713-1.323.323", "start_pos": 323, "end_pos": 323, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "WQSWVDALQTCFDDQFEDKD", "down_seq": "STLEENPDILDDDKEVINKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "site_lbl": "Thr323" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38713-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.325.325", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38713-1.343.343", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.324.324", "start_pos": 324, "end_pos": 324, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "QSWVDALQTCFDDQFEDKDT", "down_seq": "TLEENPDILDDDKEVINKSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser324" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38713-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.325.325", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38713-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38713-1.344.344", "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": "P38713-1.325.325", "start_pos": 325, "end_pos": 325, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "SWVDALQTCFDDQFEDKDTS", "down_seq": "LEENPDILDDDKEVINKSSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr325" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38713-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38713-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38713-1.344.344", "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": "P38713-1.343.343", "start_pos": 343, "end_pos": 343, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "TSTLEENPDILDDDKEVINK", "down_seq": "SPQDHDHLTPTATTKSALSH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser343" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38713-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38713-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38713-1.325.325", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38713-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38713-1.354.354", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38713-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38713-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38713-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.344.344", "start_pos": 344, "end_pos": 344, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "STLEENPDILDDDKEVINKS", "down_seq": "PQDHDHLTPTATTKSALSHR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser344" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38713-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38713-1.325.325", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38713-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38713-1.354.354", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38713-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38713-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38713-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.352.352", "start_pos": 352, "end_pos": 352, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ILDDDKEVINKSSPQDHDHL", "down_seq": "PTATTKSALSHRQHTQKDMD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Thr352" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38713-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38713-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.354.354", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38713-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38713-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38713-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.354.354", "start_pos": 354, "end_pos": 354, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "DDDKEVINKSSPQDHDHLTP", "down_seq": "ATTKSALSHRQHTQKDMDDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr354" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38713-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38713-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38713-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38713-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38713-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.356.356", "start_pos": 356, "end_pos": 356, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "Phosphoproteomic responses of TORC1 target kinases reveal discrete and convergent mechanisms that orchestrate the quiescence program in yeast.", "journal": "Cell reports", "date": "2021-12-28", "authors": "Dokl\u00e1dal Ladislav, Stumpe Michael, Hu Zehan, Jaquenoud Malika, Dengjel J\u00f6rn, De Virgilio Claudio", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DKEVINKSSPQDHDHLTPTA", "down_seq": "TKSALSHRQHTQKDMDDIYV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Thr356" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38713-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38713-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38713-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38713-1.354.354", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.359.359", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38713-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.359.359", "start_pos": 359, "end_pos": 359, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "VINKSSPQDHDHLTPTATTK", "down_seq": "ALSHRQHTQKDMDDIYVPLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser359" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38713-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38713-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38713-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38713-1.354.354", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.362.362", "start_pos": 362, "end_pos": 362, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "KSSPQDHDHLTPTATTKSAL", "down_seq": "HRQHTQKDMDDIYVPLPSES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser362" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38713-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38713-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38713-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38713-1.354.354", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38713-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.359.359", "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": "P38713-1.422.422", "start_pos": 422, "end_pos": 422, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "T", "start_aa": "T", "up_seq": "KDSLSYKPTTLHQRSEGLNG", "down_seq": "HSSSSVFTNNRVSSFNHSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr422" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38713-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38713-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38713-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38713-1.430.430", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.424.424", "start_pos": 424, "end_pos": 424, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "SLSYKPTTLHQRSEGLNGTH", "down_seq": "SSSVFTNNRVSSFNHSSSGM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser424" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38713-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38713-1.430.430", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.426.426", "start_pos": 426, "end_pos": 426, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "SYKPTTLHQRSEGLNGTHSS", "down_seq": "SVFTNNRVSSFNHSSSGMTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser426" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38713-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38713-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38713-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38713-1.446.446", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.427.427", "start_pos": 427, "end_pos": 427, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "YKPTTLHQRSEGLNGTHSSS", "down_seq": "VFTNNRVSSFNHSSSGMTSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser427" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38713-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38713-1.446.446", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.430.430", "start_pos": 430, "end_pos": 430, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "TTLHQRSEGLNGTHSSSSVF", "down_seq": "NNRVSSFNHSSSGMTSSDSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr430" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38713-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38713-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38713-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38713-1.446.446", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38713-1.449.449", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.446.446", "start_pos": 446, "end_pos": 446, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "SSVFTNNRVSSFNHSSSGMT", "down_seq": "SDSLASEEVPSNKTYIEHAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser446" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38713-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P38713-1.427.427", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P38713-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38713-1.452.452", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.449.449", "start_pos": 449, "end_pos": 449, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "FTNNRVSSFNHSSSGMTSSD", "down_seq": "LASEEVPSNKTYIEHALYNQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "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": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser449" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38713-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.446.446", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.452.452", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.452.452", "start_pos": 452, "end_pos": 452, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "NRVSSFNHSSSGMTSSDSLA", "down_seq": "EEVPSNKTYIEHALYNQLAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "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": "Ser452" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38713-1.446.446", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.449.449", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.504.504", "start_pos": 504, "end_pos": 504, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "GEVLFKDHQILCKKAKDTRV", "down_seq": "LTSYLSENDEFFDAEEEISR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser504" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "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": "P38713-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "KKSIEVGIYKKLKSSVDDHA", "down_seq": "AVHIAPDTKTLLDYTTKSLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser52" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P38713-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38713-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38713-1.68.68", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.532.532", "start_pos": 532, "end_pos": 532, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "NDEFFDAEEEISRGVIILPD", "down_seq": "EDDINNIVEETPLLGKSDQN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr532" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P38713-1.543.543", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.543.543", "start_pos": 543, "end_pos": 543, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "SRGVIILPDTEDDINNIVEE", "down_seq": "PLLGKSDQNEFTKEVQLSGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr543" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38713-1.532.532", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38713-1.561.561", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.561.561", "start_pos": 561, "end_pos": 561, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "EETPLLGKSDQNEFTKEVQL", "down_seq": "GSEQIASSSVESYTTNDENH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser561" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P38713-1.543.543", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38713-1.573.573", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.573.573", "start_pos": 573, "end_pos": 573, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "EFTKEVQLSGSEQIASSSVE", "down_seq": "YTTNDENHSRKHLKNRHKNR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser573" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38713-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38713-1.582.582", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.582.582", "start_pos": 582, "end_pos": 582, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "GSEQIASSSVESYTTNDENH", "down_seq": "RKHLKNRHKNRRRGHPHHQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser582" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38713-1.573.573", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.603.603", "start_pos": 603, "end_pos": 603, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "RKHLKNRHKNRRRGHPHHQK", "down_seq": "KSAQSSTETFTSKDLFALSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "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": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr603" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38713-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38713-1.608.608", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38713-1.609.609", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38713-1.610.610", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38713-1.612.612", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.605.605", "start_pos": 605, "end_pos": 605, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "HLKNRHKNRRRGHPHHQKTK", "down_seq": "AQSSTETFTSKDLFALSYPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "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": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "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": "Ser605" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38713-1.603.603", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.608.608", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38713-1.609.609", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38713-1.610.610", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38713-1.612.612", "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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.608.608", "start_pos": 608, "end_pos": 608, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "NRHKNRRRGHPHHQKTKSAQ", "down_seq": "STETFTSKDLFALSYPKSVT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "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": "Ser608" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38713-1.603.603", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.609.609", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.610.610", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38713-1.612.612", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.609.609", "start_pos": 609, "end_pos": 609, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "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": "RHKNRRRGHPHHQKTKSAQS", "down_seq": "TETFTSKDLFALSYPKSVTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "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": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "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": "Ser609" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38713-1.603.603", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38713-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.608.608", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.610.610", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38713-1.612.612", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.610.610", "start_pos": 610, "end_pos": 610, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "HKNRRRGHPHHQKTKSAQSS", "down_seq": "ETFTSKDLFALSYPKSVTRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr610" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38713-1.603.603", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38713-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38713-1.608.608", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.609.609", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38713-1.612.612", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.612.612", "start_pos": 612, "end_pos": 612, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "NRRRGHPHHQKTKSAQSSTE", "down_seq": "FTSKDLFALSYPKSVTRRND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr612" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38713-1.603.603", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38713-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38713-1.608.608", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38713-1.609.609", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38713-1.610.610", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.62.62", "start_pos": 62, "end_pos": 62, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "KLKSSVDDHASAVHIAPDTK", "down_seq": "LLDYTTKSLLHKGSSSNIEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr62" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38713-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38713-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38713-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38713-1.76.76", "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": "P38713-1.67.67", "start_pos": 67, "end_pos": 67, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "VDDHASAVHIAPDTKTLLDY", "down_seq": "TKSLLHKGSSSNIEEHHRRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr67" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P38713-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38713-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38713-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38713-1.76.76", "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": "P38713-1.68.68", "start_pos": 68, "end_pos": 68, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "DDHASAVHIAPDTKTLLDYT", "down_seq": "KSLLHKGSSSNIEEHHRRSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr68" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38713-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38713-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38713-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38713-1.76.76", "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": "P38713-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "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": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "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": "IAPDTKTLLDYTTKSLLHKG", "down_seq": "SSNIEEHHRRSSQHSHSSSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser76" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38713-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38713-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38713-1.68.68", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38713-1.830.830", "start_pos": 830, "end_pos": 830, "uniprot_canonical_ac": "P38713-1", "length": 996, "uniprot_id": "OSH3_YEAST", "protein_name": "Oxysterol-binding protein homolog 3", "refseq_ac": "NP_011940", "refseq_name": "oxysterol-binding protein related protein OSH3", "gene_name": "OSH3", "gene_names_uniprotkb": "OSH3", "gene_names_refseq": "OSH3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" } ], "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": "P38713", "url": "https://www.uniprot.org/uniprotkb/P38713" }, { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GERYMEPVNEFEVHSSKGDK", "down_seq": "HILFDKAGMFSGRSEGFKVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38713", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38713" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001115", "url": "https://www.yeastgenome.org/locus/S000001115" } ], "site_lbl": "Ser830" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "766", "end_pos": "766" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "108", "end_pos": "108" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "532", "end_pos": "532" }, { "start_pos": "543", "end_pos": "543" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "609", "end_pos": "609" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "612", "end_pos": "612" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "830", "end_pos": "830" } ] } ], "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": "P38719-1.155.155", "start_pos": 155, "end_pos": 155, "uniprot_canonical_ac": "P38719-1", "length": 431, "uniprot_id": "DBP8_YEAST", "protein_name": "ATP-dependent RNA helicase DBP8", "refseq_ac": "NP_012039", "refseq_name": "ATP-dependent RNA helicase DBP8", "gene_name": "DBP8", "gene_names_uniprotkb": "DBP8", "gene_names_refseq": "DBP8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The nucleolar protein Esf2 interacts directly with the DExD/H box RNA helicase, Dbp8, to stimulate ATP hydrolysis.", "journal": "Nucleic acids research", "date": "2006", "authors": "Granneman Sander, Lin ChieYu, Champion Erica A, Nandineni Madhusudan R, Zorca Cornelia, Baserga Susan J", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "reference": [ { "type": "PubMed", "id": "16772403", "url": "https://glygen.org/publication/PubMed/16772403" } ] } ], "crossref": [ { "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16772403", "url": "https://glygen.org/publication/PubMed/16772403", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "IMSSGDDTVGGLMRAKYLVL", "down_seq": "EADILLTSTFADHLATCISA", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Decreases ATPase activity in vitro.", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" }, { "database": "PubMed", "id": "16772403", "url": "https://glygen.org/publication/PubMed/16772403" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "155", "end_pos": "156" }, { "start_pos": "188", "end_pos": "190" }, { "start_pos": "341", "end_pos": "342" }, { "start_pos": "51", "end_pos": "52" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "upstream", "id": "P38719-1.155.156", "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": "P38719-1.155.156", "start_pos": 155, "end_pos": 156, "uniprot_canonical_ac": "P38719-1", "length": 431, "uniprot_id": "DBP8_YEAST", "protein_name": "ATP-dependent RNA helicase DBP8", "refseq_ac": "NP_012039", "refseq_name": "ATP-dependent RNA helicase DBP8", "gene_name": "DBP8", "gene_names_uniprotkb": "DBP8", "gene_names_refseq": "DBP8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization and mutational analysis of yeast Dbp8p, a putative RNA helicase involved in ribosome biogenesis.", "journal": "Nucleic acids research", "date": "2001-03-01", "authors": "Daugeron M C, Linder P", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "reference": [ { "type": "PubMed", "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764" } ] } ], "crossref": [ { "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "DE", "start_aa": "D", "up_seq": "IMSSGDDTVGGLMRAKYLVL", "down_seq": "ADILLTSTFADHLATCISAL", "mutagenesis": [ { "sequence_org": "DE", "sequence_mut": "AA", "comment": "In DBP8-2; loss of activity.", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" }, { "database": "PubMed", "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "155", "end_pos": "156" }, { "start_pos": "188", "end_pos": "190" }, { "start_pos": "341", "end_pos": "342" }, { "start_pos": "51", "end_pos": "52" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "downstream", "id": "P38719-1.155.155", "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": "P38719-1.188.190", "start_pos": 188, "end_pos": 190, "uniprot_canonical_ac": "P38719-1", "length": 431, "uniprot_id": "DBP8_YEAST", "protein_name": "ATP-dependent RNA helicase DBP8", "refseq_ac": "NP_012039", "refseq_name": "ATP-dependent RNA helicase DBP8", "gene_name": "DBP8", "gene_names_uniprotkb": "DBP8", "gene_names_refseq": "DBP8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization and mutational analysis of yeast Dbp8p, a putative RNA helicase involved in ribosome biogenesis.", "journal": "Nucleic acids research", "date": "2001-03-01", "authors": "Daugeron M C, Linder P", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "reference": [ { "type": "PubMed", "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764" } ] } ], "crossref": [ { "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "TAT", "start_aa": "T", "up_seq": "HLATCISALPPKDKRQTLLF", "down_seq": "ITDQVKSLQNAPVQKGKPPL", "mutagenesis": [ { "sequence_org": "TAT", "sequence_mut": "AAA", "comment": "In DBP8-3; severely affects growth.", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" }, { "database": "PubMed", "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "155", "end_pos": "156" }, { "start_pos": "188", "end_pos": "190" }, { "start_pos": "341", "end_pos": "342" }, { "start_pos": "51", "end_pos": "52" }, { "start_pos": "52", "end_pos": "52" } ] } ], "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": "P38719-1.341.342", "start_pos": 341, "end_pos": 342, "uniprot_canonical_ac": "P38719-1", "length": 431, "uniprot_id": "DBP8_YEAST", "protein_name": "ATP-dependent RNA helicase DBP8", "refseq_ac": "NP_012039", "refseq_name": "ATP-dependent RNA helicase DBP8", "gene_name": "DBP8", "gene_names_uniprotkb": "DBP8", "gene_names_refseq": "DBP8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization and mutational analysis of yeast Dbp8p, a putative RNA helicase involved in ribosome biogenesis.", "journal": "Nucleic acids research", "date": "2001-03-01", "authors": "Daugeron M C, Linder P", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "reference": [ { "type": "PubMed", "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764" } ] } ], "crossref": [ { "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "RS", "start_aa": "R", "up_seq": "PTVELVVNYDIPSDPDVFIH", "down_seq": "GRTARAGRIGDAISFVTQRD", "mutagenesis": [ { "sequence_org": "RS", "sequence_mut": "AA", "comment": "In DBP8-4; no effect on growth.", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" }, { "database": "PubMed", "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "155", "end_pos": "156" }, { "start_pos": "188", "end_pos": "190" }, { "start_pos": "341", "end_pos": "342" }, { "start_pos": "51", "end_pos": "52" }, { "start_pos": "52", "end_pos": "52" } ] } ], "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": "P38719-1.51.52", "start_pos": 51, "end_pos": 52, "uniprot_canonical_ac": "P38719-1", "length": 431, "uniprot_id": "DBP8_YEAST", "protein_name": "ATP-dependent RNA helicase DBP8", "refseq_ac": "NP_012039", "refseq_name": "ATP-dependent RNA helicase DBP8", "gene_name": "DBP8", "gene_names_uniprotkb": "DBP8", "gene_names_refseq": "DBP8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization and mutational analysis of yeast Dbp8p, a putative RNA helicase involved in ribosome biogenesis.", "journal": "Nucleic acids research", "date": "2001-03-01", "authors": "Daugeron M C, Linder P", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "reference": [ { "type": "PubMed", "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764" } ] } ], "crossref": [ { "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "GK", "start_aa": "G", "up_seq": "ACIPKILEGRDCIGGAKTGS", "down_seq": "TIAFAGPMLTKWSEDPSGMF", "mutagenesis": [ { "sequence_org": "GK", "sequence_mut": "AA", "comment": "In DBP8-1; loss of activity.", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" }, { "database": "PubMed", "id": "11222764", "url": "https://glygen.org/publication/PubMed/11222764" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "155", "end_pos": "156" }, { "start_pos": "188", "end_pos": "190" }, { "start_pos": "341", "end_pos": "342" }, { "start_pos": "51", "end_pos": "52" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "upstream", "id": "P38719-1.52.52", "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": "P38719-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "P38719-1", "length": 431, "uniprot_id": "DBP8_YEAST", "protein_name": "ATP-dependent RNA helicase DBP8", "refseq_ac": "NP_012039", "refseq_name": "ATP-dependent RNA helicase DBP8", "gene_name": "DBP8", "gene_names_uniprotkb": "DBP8", "gene_names_refseq": "DBP8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The nucleolar protein Esf2 interacts directly with the DExD/H box RNA helicase, Dbp8, to stimulate ATP hydrolysis.", "journal": "Nucleic acids research", "date": "2006", "authors": "Granneman Sander, Lin ChieYu, Champion Erica A, Nandineni Madhusudan R, Zorca Cornelia, Baserga Susan J", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" } ], "reference": [ { "type": "PubMed", "id": "16772403", "url": "https://glygen.org/publication/PubMed/16772403" } ] } ], "crossref": [ { "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16772403", "url": "https://glygen.org/publication/PubMed/16772403", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "CIPKILEGRDCIGGAKTGSG", "down_seq": "TIAFAGPMLTKWSEDPSGMF", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Decreases ATPase activity in vitro.", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" }, { "database": "PubMed", "id": "16772403", "url": "https://glygen.org/publication/PubMed/16772403" } ] }, { "sequence_org": "K", "sequence_mut": "R", "comment": "Decreases ATPase activity in vitro.", "evidence": [ { "database": "UniProtKB", "id": "P38719", "url": "https://www.uniprot.org/uniprotkb/P38719" }, { "database": "PubMed", "id": "16772403", "url": "https://glygen.org/publication/PubMed/16772403" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "155", "end_pos": "156" }, { "start_pos": "188", "end_pos": "190" }, { "start_pos": "341", "end_pos": "342" }, { "start_pos": "51", "end_pos": "52" }, { "start_pos": "52", "end_pos": "52" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "downstream", "id": "P38719-1.51.52", "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": "P38759-1.171.171", "start_pos": 171, "end_pos": 171, "uniprot_canonical_ac": "P38759-1", "length": 282, "uniprot_id": "VPS29_YEAST", "protein_name": "Vacuolar protein sorting-associated protein 29", "refseq_ac": "NP_011876", "refseq_name": "retromer subunit VPS29", "gene_name": "VPS29", "gene_names_uniprotkb": "VPS29; PEP11; VTP6", "gene_names_refseq": "PEP11; VPS29; VPT6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38759", "url": "https://www.uniprot.org/uniprotkb/P38759" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759", "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": "PGSCTGAFNTDWPIVFDVED", "down_seq": "DEAVTSEVDKPTKENQSEDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054" }, { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser171" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "171", "end_pos": "171" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "238", "end_pos": "238" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38759-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38759-1.188.188", "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": "P38759-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "P38759-1", "length": 282, "uniprot_id": "VPS29_YEAST", "protein_name": "Vacuolar protein sorting-associated protein 29", "refseq_ac": "NP_011876", "refseq_name": "retromer subunit VPS29", "gene_name": "VPS29", "gene_names_uniprotkb": "VPS29; PEP11; VTP6", "gene_names_refseq": "PEP11; VPS29; VPT6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38759", "url": "https://www.uniprot.org/uniprotkb/P38759" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759", "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": "AFNTDWPIVFDVEDSDEAVT", "down_seq": "EVDKPTKENQSEDDDAKGGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054" }, { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser177" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "171", "end_pos": "171" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "238", "end_pos": "238" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38759-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38759-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38759-1.197.197", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38759-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P38759-1", "length": 282, "uniprot_id": "VPS29_YEAST", "protein_name": "Vacuolar protein sorting-associated protein 29", "refseq_ac": "NP_011876", "refseq_name": "retromer subunit VPS29", "gene_name": "VPS29", "gene_names_uniprotkb": "VPS29; PEP11; VTP6", "gene_names_refseq": "PEP11; VPS29; VPT6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38759", "url": "https://www.uniprot.org/uniprotkb/P38759" } ], "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": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "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": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054", "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": "VEDSDEAVTSEVDKPTKENQ", "down_seq": "EDDDAKGGSTGKEQPGSYTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser188" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "171", "end_pos": "171" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "238", "end_pos": "238" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38759-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38759-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38759-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38759-1.205.205", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38759-1.207.207", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38759-1.197.197", "start_pos": 197, "end_pos": 197, "uniprot_canonical_ac": "P38759-1", "length": 282, "uniprot_id": "VPS29_YEAST", "protein_name": "Vacuolar protein sorting-associated protein 29", "refseq_ac": "NP_011876", "refseq_name": "retromer subunit VPS29", "gene_name": "VPS29", "gene_names_uniprotkb": "VPS29; PEP11; VTP6", "gene_names_refseq": "PEP11; VPS29; VPT6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38759", "url": "https://www.uniprot.org/uniprotkb/P38759" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759", "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": "SEVDKPTKENQSEDDDAKGG", "down_seq": "TGKEQPGSYTPKEGTAGERE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054" }, { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser197" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "171", "end_pos": "171" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "238", "end_pos": "238" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38759-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38759-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38759-1.205.205", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38759-1.207.207", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38759-1.205.205", "start_pos": 205, "end_pos": 205, "uniprot_canonical_ac": "P38759-1", "length": 282, "uniprot_id": "VPS29_YEAST", "protein_name": "Vacuolar protein sorting-associated protein 29", "refseq_ac": "NP_011876", "refseq_name": "retromer subunit VPS29", "gene_name": "VPS29", "gene_names_uniprotkb": "VPS29; PEP11; VTP6", "gene_names_refseq": "PEP11; VPS29; VPT6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38759", "url": "https://www.uniprot.org/uniprotkb/P38759" } ], "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": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "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": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "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": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054", "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": "ENQSEDDDAKGGSTGKEQPG", "down_seq": "YTPKEGTAGERENENESNVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser205" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "171", "end_pos": "171" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "238", "end_pos": "238" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P38759-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38759-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38759-1.207.207", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38759-1.207.207", "start_pos": 207, "end_pos": 207, "uniprot_canonical_ac": "P38759-1", "length": 282, "uniprot_id": "VPS29_YEAST", "protein_name": "Vacuolar protein sorting-associated protein 29", "refseq_ac": "NP_011876", "refseq_name": "retromer subunit VPS29", "gene_name": "VPS29", "gene_names_uniprotkb": "VPS29; PEP11; VTP6", "gene_names_refseq": "PEP11; VPS29; VPT6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38759", "url": "https://www.uniprot.org/uniprotkb/P38759" } ], "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": "P38759", "url": "https://www.uniprot.org/uniprotkb/P38759" }, { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "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": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "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": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QSEDDDAKGGSTGKEQPGSY", "down_seq": "PKEGTAGERENENESNVKPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054" }, { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" }, { "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": "Thr207" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "171", "end_pos": "171" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "238", "end_pos": "238" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38759-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38759-1.197.197", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38759-1.205.205", "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": "P38759-1.238.238", "start_pos": 238, "end_pos": 238, "uniprot_canonical_ac": "P38759-1", "length": 282, "uniprot_id": "VPS29_YEAST", "protein_name": "Vacuolar protein sorting-associated protein 29", "refseq_ac": "NP_011876", "refseq_name": "retromer subunit VPS29", "gene_name": "VPS29", "gene_names_uniprotkb": "VPS29; PEP11; VTP6", "gene_names_refseq": "PEP11; VPS29; VPT6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38759", "url": "https://www.uniprot.org/uniprotkb/P38759" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759", "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": "NENESNVKPENQFKEDEVDM", "down_seq": "DSDINGSNSPSFCLLDIQGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001054", "url": "https://www.yeastgenome.org/locus/S000001054" }, { "database": "iPTMnet", "id": "P38759", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38759" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser238" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "171", "end_pos": "171" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "238", "end_pos": "238" } ] } ], "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": "P38764-1.11.11", "start_pos": 11, "end_pos": 11, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "MVDESDKKQQ", "down_seq": "IDEQSQISPEKQTPNKKDKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr11" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P38764-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38764-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38764-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38764-1.24.24", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.16.16", "start_pos": 16, "end_pos": 16, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "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": "MVDESDKKQQTIDEQ", "down_seq": "QISPEKQTPNKKDKKKEEEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "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": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "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": "Ser16" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38764-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38764-1.11.11", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38764-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38764-1.24.24", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "LALEIGEVYNDQVEKDAEDE", "down_seq": "SSDGSKSDGSAATSGFEFSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr177" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38764-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38764-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38764-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38764-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38764-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38764-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38764-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38764-1.196.196", "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": "P38764-1.178.178", "start_pos": 178, "end_pos": 178, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "ALEIGEVYNDQVEKDAEDET", "down_seq": "SDGSKSDGSAATSGFEFSKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38764-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38764-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38764-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38764-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38764-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38764-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38764-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P38764-1.196.196", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.179.179", "start_pos": 179, "end_pos": 179, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "LEIGEVYNDQVEKDAEDETS", "down_seq": "DGSKSDGSAATSGFEFSKED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser179" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38764-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38764-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38764-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38764-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38764-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38764-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38764-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P38764-1.196.196", "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": "P38764-1.182.182", "start_pos": 182, "end_pos": 182, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "GEVYNDQVEKDAEDETSSDG", "down_seq": "KSDGSAATSGFEFSKEDTLR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser182" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38764-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38764-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38764-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38764-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38764-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38764-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38764-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38764-1.196.196", "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": "P38764-1.184.184", "start_pos": 184, "end_pos": 184, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "VYNDQVEKDAEDETSSDGSK", "down_seq": "DGSAATSGFEFSKEDTLRLC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "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": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser184" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38764-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38764-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38764-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38764-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38764-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38764-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38764-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38764-1.196.196", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "DQVEKDAEDETSSDGSKSDG", "down_seq": "AATSGFEFSKEDTLRLCLDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "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": "Ser187" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P38764-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38764-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38764-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38764-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38764-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38764-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38764-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38764-1.196.196", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.190.190", "start_pos": 190, "end_pos": 190, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "EKDAEDETSSDGSKSDGSAA", "down_seq": "SGFEFSKEDTLRLCLDIVPY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr190" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38764-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38764-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38764-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38764-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38764-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38764-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38764-1.191.191", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P38764-1.196.196", "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": "P38764-1.191.191", "start_pos": 191, "end_pos": 191, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "KDAEDETSSDGSKSDGSAAT", "down_seq": "GFEFSKEDTLRLCLDIVPYF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser191" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38764-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38764-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38764-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38764-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38764-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38764-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38764-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38764-1.196.196", "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": "P38764-1.196.196", "start_pos": 196, "end_pos": 196, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ETSSDGSKSDGSAATSGFEF", "down_seq": "KEDTLRLCLDIVPYFLKHNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" } ], "site_lbl": "Ser196" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38764-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P38764-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P38764-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P38764-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P38764-1.184.184", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38764-1.187.187", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P38764-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38764-1.191.191", "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": "P38764-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ] }, { "title": "Effects of Acetylation and Phosphorylation on Subunit Interactions in Three Large Eukaryotic Complexes.", "journal": "Molecular & cellular proteomics : MCP", "date": "2018-12", "authors": "\u0160o\u0161tari\u0107 Nikolina, O'Reilly Francis J, Giansanti Piero, Heck Albert J R, Gavin Anne-Claude, van Noort Vera", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "30181345", "url": "https://glygen.org/publication/PubMed/30181345" } ] }, { "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764", "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "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": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30181345", "url": "https://glygen.org/publication/PubMed/30181345", "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": "MVDESDKKQQTIDEQSQI", "down_seq": "PEKQTPNKKDKKKEEEEQLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "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": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "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": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" }, { "database": "PubMed", "id": "30181345", "url": "https://glygen.org/publication/PubMed/30181345" }, { "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": "Ser19" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38764-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38764-1.11.11", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38764-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P38764-1.24.24", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P38764-1.39.39", "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": 15 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.24.24", "start_pos": 24, "end_pos": 24, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "ESDKKQQTIDEQSQISPEKQ", "down_seq": "PNKKDKKKEEEEQLSEEDAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "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": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "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": "Thr24" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38764-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38764-1.11.11", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38764-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P38764-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P38764-1.39.39", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "NELTDAIALAVRLGEEDMIR", "down_seq": "VFDATSDPVMHKQLAYILAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser296" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "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": "P38764-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "IIGNGKLSEHFLYLAKELNL", "down_seq": "GPKVPEDIYKSHLDNSKSVF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr349" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P38764-1.360.360", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.360.360", "start_pos": 360, "end_pos": 360, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "LYLAKELNLTGPKVPEDIYK", "down_seq": "HLDNSKSVFSSAGLDSAQQN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser360" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38764-1.349.349", "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": "P38764-1.39.39", "start_pos": 39, "end_pos": 39, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "SPEKQTPNKKDKKKEEEEQL", "down_seq": "EEDAKLKTDLELLVERLKED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser39" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P38764-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P38764-1.24.24", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "MVDE", "down_seq": "DKKQQTIDEQSQISPEKQTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser5" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P38764-1.11.11", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38764-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38764-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38764-1.24.24", "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": "P38764-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "EDAKLKTDLELLVERLKEDD", "down_seq": "SLYEASLNALKESIKNSTSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser61" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38764-1.62.62", "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": "P38764-1.62.62", "start_pos": 62, "end_pos": 62, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "DAKLKTDLELLVERLKEDDS", "down_seq": "LYEASLNALKESIKNSTSSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser62" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38764-1.61.61", "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": "P38764-1.640.640", "start_pos": 640, "end_pos": 640, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] } ], "crossref": [ { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LLHRLTPKNVKGEEDADEEE", "down_seq": "AEGQTNSISDFLGEQVNEPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" } ], "site_lbl": "Thr640" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P38764-1.645.645", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38764-1.647.647", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38764-1.649.649", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.645.645", "start_pos": 645, "end_pos": 645, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "TPKNVKGEEDADEEETAEGQ", "down_seq": "NSISDFLGEQVNEPTKNEEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr645" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P38764-1.640.640", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38764-1.647.647", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38764-1.649.649", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.647.647", "start_pos": 647, "end_pos": 647, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "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": "KNVKGEEDADEEETAEGQTN", "down_seq": "ISDFLGEQVNEPTKNEEAEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "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": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser647" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38764-1.640.640", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38764-1.645.645", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38764-1.649.649", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38764-1.649.649", "start_pos": 649, "end_pos": 649, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "VKGEEDADEEETAEGQTNSI", "down_seq": "DFLGEQVNEPTKNEEAEIEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser649" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38764-1.640.640", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38764-1.645.645", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38764-1.647.647", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.695.695", "start_pos": 695, "end_pos": 695, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "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": "DAEGEEVEVKAEITEKKNGE", "down_seq": "LEGEEIKSEEKKGKSSDKDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "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": "Ser695" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P38764-1.703.703", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.703.703", "start_pos": 703, "end_pos": 703, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "VKAEITEKKNGESLEGEEIK", "down_seq": "EEKKGKSSDKDATTDGKNDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser703" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38764-1.695.695", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.952.952", "start_pos": 952, "end_pos": 952, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "AVETVGQAGRPKKITGWITQ", "down_seq": "TPVLLNHGERAELETDEYIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser952" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38764-1.953.953", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.953.953", "start_pos": 953, "end_pos": 953, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "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": "VETVGQAGRPKKITGWITQS", "down_seq": "PVLLNHGERAELETDEYISY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr953" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38764-1.952.952", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38764-1.989.989", "start_pos": 989, "end_pos": 989, "uniprot_canonical_ac": "P38764-1", "length": 993, "uniprot_id": "RPN1_YEAST", "protein_name": "26S proteasome regulatory subunit RPN1", "refseq_ac": "NP_011892", "refseq_name": "proteasome regulatory particle base subunit RPN1", "gene_name": "RPN1", "gene_names_uniprotkb": "RPN1; HRD2; NAS1; RPD1", "gene_names_refseq": "HRD2; NAS1; RPN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38764", "url": "https://www.uniprot.org/uniprotkb/P38764" } ], "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": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "EYISYTSHIEGVVILKKNPD", "down_seq": "REEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001069", "url": "https://www.yeastgenome.org/locus/S000001069" }, { "database": "iPTMnet", "id": "P38764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38764" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Tyr989" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "24", "end_pos": "24" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "640", "end_pos": "640" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "649", "end_pos": "649" }, { "start_pos": "695", "end_pos": "695" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "952", "end_pos": "952" }, { "start_pos": "953", "end_pos": "953" }, { "start_pos": "989", "end_pos": "989" } ] } ], "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": "P38782-1.225.225", "start_pos": 225, "end_pos": 225, "uniprot_canonical_ac": "P38782-1", "length": 295, "uniprot_id": "MED6_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 6", "refseq_ac": "NP_011925", "refseq_name": "mediator complex subunit MED6", "gene_name": "MED6", "gene_names_uniprotkb": "MED6; MTR32", "gene_names_refseq": "MED6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38782", "url": "https://www.uniprot.org/uniprotkb/P38782" } ], "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": "P38782", "url": "https://www.uniprot.org/uniprotkb/P38782" }, { "database": "iPTMnet", "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" } ], "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": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" } ], "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": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" } ], "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": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38782", "url": "https://www.uniprot.org/uniprotkb/P38782", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001100", "url": "https://www.yeastgenome.org/locus/S000001100", "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": "PTDTSTTATAATNGNNAGGG", "down_seq": "NKSSVRPTGGANMATVPSTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38782", "url": "https://www.uniprot.org/uniprotkb/P38782" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" }, { "database": "SGD", "id": "S000001100", "url": "https://www.yeastgenome.org/locus/S000001100" }, { "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": "Ser225" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "225", "end_pos": "225" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "260", "end_pos": "260" } ] } ], "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": "P38782-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "P38782-1", "length": 295, "uniprot_id": "MED6_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 6", "refseq_ac": "NP_011925", "refseq_name": "mediator complex subunit MED6", "gene_name": "MED6", "gene_names_uniprotkb": "MED6; MTR32", "gene_names_refseq": "MED6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38782", "url": "https://www.uniprot.org/uniprotkb/P38782" } ], "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": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001100", "url": "https://www.yeastgenome.org/locus/S000001100", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782", "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": "TGGANMATVPSTTNVNMTVN", "down_seq": "MGTGGQTIDNGTGRTGNGNM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001100", "url": "https://www.yeastgenome.org/locus/S000001100" }, { "database": "iPTMnet", "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr253" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "225", "end_pos": "225" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "260", "end_pos": "260" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38782-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38782-1.260.260", "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": "P38782-1.256.256", "start_pos": 256, "end_pos": 256, "uniprot_canonical_ac": "P38782-1", "length": 295, "uniprot_id": "MED6_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 6", "refseq_ac": "NP_011925", "refseq_name": "mediator complex subunit MED6", "gene_name": "MED6", "gene_names_uniprotkb": "MED6; MTR32", "gene_names_refseq": "MED6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38782", "url": "https://www.uniprot.org/uniprotkb/P38782" } ], "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": "P38782", "url": "https://www.uniprot.org/uniprotkb/P38782" }, { "database": "iPTMnet", "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" } ], "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": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" } ], "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": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001100", "url": "https://www.yeastgenome.org/locus/S000001100", "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": "ANMATVPSTTNVNMTVNTMG", "down_seq": "GGQTIDNGTGRTGNGNMGIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001100", "url": "https://www.yeastgenome.org/locus/S000001100" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr256" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "225", "end_pos": "225" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "260", "end_pos": "260" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38782-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P38782-1.260.260", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38782-1.260.260", "start_pos": 260, "end_pos": 260, "uniprot_canonical_ac": "P38782-1", "length": 295, "uniprot_id": "MED6_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 6", "refseq_ac": "NP_011925", "refseq_name": "mediator complex subunit MED6", "gene_name": "MED6", "gene_names_uniprotkb": "MED6; MTR32", "gene_names_refseq": "MED6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38782", "url": "https://www.uniprot.org/uniprotkb/P38782" } ], "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": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001100", "url": "https://www.yeastgenome.org/locus/S000001100", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782", "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": "TVPSTTNVNMTVNTMGTGGQ", "down_seq": "IDNGTGRTGNGNMGITTEML", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001100", "url": "https://www.yeastgenome.org/locus/S000001100" }, { "database": "iPTMnet", "id": "P38782", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38782" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr260" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "225", "end_pos": "225" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "260", "end_pos": "260" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38782-1.253.253", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P38782-1.256.256", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The ribosome-bound chaperones RAC and Ssb1/2p are required for accurate translation in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "2004", "authors": "Rakwalska M, Rospert S", "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "reference": [ { "type": "PubMed", "id": "15456889", "url": "https://glygen.org/publication/PubMed/15456889" } ] } ], "crossref": [ { "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15456889", "url": "https://glygen.org/publication/PubMed/15456889", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NATSATISIDSLADGFDYHA", "down_seq": "INRMRYELVANKVFAQFSSF", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "F", "comment": "Increases readthrough in translation termination.", "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "PubMed", "id": "15456889", "url": "https://glygen.org/publication/PubMed/15456889" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P38788-1.314.314", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.104.104", "start_pos": 104, "end_pos": 104, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "SKCANGAPAVEVDGKVGFVI", "down_seq": "RGEGKEEKLTVDEVVSRHLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser104" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P38788-1.120.120", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.120.120", "start_pos": 120, "end_pos": 120, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "GFVISRGEGKEEKLTVDEVV", "down_seq": "RHLNRLKLAAEDYIGSAVKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser120" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38788-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38788-1.136.136", "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": "P38788-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "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": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "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": "DEVVSRHLNRLKLAAEDYIG", "down_seq": "AVKEAVLTVPTNFSEEQKTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser136" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38788-1.120.120", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38788-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.155.155", "start_pos": 155, "end_pos": 155, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "GSAVKEAVLTVPTNFSEEQK", "down_seq": "ALKASAAKIGLQIVQFINEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr155" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38788-1.136.136", "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": "P38788-1.204.204", "start_pos": 204, "end_pos": 204, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "EQFPFEKDVNVVVADFGGIR", "down_seq": "DAAVIAVRNGIFTILATAHD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser204" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "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": "P38788-1.267.267", "start_pos": 267, "end_pos": 267, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "KYQANPRKNARSLAKLKANS", "down_seq": "ITKKTLSNATSATISIDSLA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser267" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "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": "P38788-1.314.314", "start_pos": 314, "end_pos": 314, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "ASINRMRYELVANKVFAQFS", "down_seq": "FVDSVIAKAELDPLDIDAVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser314" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38788-1.295.295", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.377.377", "start_pos": 377, "end_pos": 377, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "VEILGPQNKNASNNPNELAA", "down_seq": "GAALQARLISDYDADELAEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser377" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "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": "P38788-1.405.405", "start_pos": 405, "end_pos": 405, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "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": "LISDYDADELAEALQPVIVN", "down_seq": "PHLKKPIGLIGAKGEFHPVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr405" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "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": "P38788-1.429.429", "start_pos": 429, "end_pos": 429, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "KKPIGLIGAKGEFHPVLLAE", "down_seq": "SFPVQKKLTLKQAKGDFLIG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr429" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38788-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38788-1.438.438", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.430.430", "start_pos": 430, "end_pos": 430, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "KPIGLIGAKGEFHPVLLAET", "down_seq": "FPVQKKLTLKQAKGDFLIGV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser430" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38788-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P38788-1.438.438", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.438.438", "start_pos": 438, "end_pos": 438, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "KGEFHPVLLAETSFPVQKKL", "down_seq": "LKQAKGDFLIGVYEGDHHIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr438" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38788-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P38788-1.430.430", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.461.461", "start_pos": 461, "end_pos": 461, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "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": "QAKGDFLIGVYEGDHHIEEK", "down_seq": "LEPIPKEENAEEDDESEWSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "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": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "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": "Thr461" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P38788-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38788-1.480.480", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.477.477", "start_pos": 477, "end_pos": 477, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "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": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788", "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IEEKTLEPIPKEENAEEDDE", "down_seq": "EWSDDEPEVVREKLYTLGTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "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": "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": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38788-1.461.461", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38788-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38788-1.493.493", "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": 16 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.480.480", "start_pos": 480, "end_pos": 480, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "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": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788", "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": "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": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KTLEPIPKEENAEEDDESEW", "down_seq": "DDEPEVVREKLYTLGTKLME", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "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": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser480" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38788-1.461.461", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38788-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38788-1.493.493", "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": 17 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.493.493", "start_pos": 493, "end_pos": 493, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "EDDESEWSDDEPEVVREKLY", "down_seq": "LGTKLMELGIKNANGVEIIF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr493" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38788-1.477.477", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38788-1.480.480", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38788-1.524.524", "start_pos": 524, "end_pos": 524, "uniprot_canonical_ac": "P38788-1", "length": 538, "uniprot_id": "SSZ1_YEAST", "protein_name": "Ribosome-associated complex subunit SSZ1", "refseq_ac": "NP_011931", "refseq_name": "ribosome-associated complex protein SSZ1", "gene_name": "SSZ1", "gene_names_uniprotkb": "SSZ1; PDR13", "gene_names_refseq": "PDR13; SSZ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38788", "url": "https://www.uniprot.org/uniprotkb/P38788" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788", "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": "KNANGVEIIFNINKDGALRV", "down_seq": "ARDLKTGNAVKGEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001106", "url": "https://www.yeastgenome.org/locus/S000001106" }, { "database": "iPTMnet", "id": "P38788", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38788" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr524" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "295", "end_pos": "295" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "314", "end_pos": "314" }, { "start_pos": "377", "end_pos": "377" }, { "start_pos": "405", "end_pos": "405" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "461", "end_pos": "461" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "524", "end_pos": "524" } ] } ], "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": "P38789-1.106.106", "start_pos": 106, "end_pos": 106, "uniprot_canonical_ac": "P38789-1", "length": 453, "uniprot_id": "SSF1_YEAST", "protein_name": "Ribosome biogenesis protein SSF1", "refseq_ac": "NP_011933", "refseq_name": "rRNA-binding ribosome biosynthesis protein", "gene_name": "SSF1", "gene_names_uniprotkb": "SSF1", "gene_names_refseq": "SSF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38789", "url": "https://www.uniprot.org/uniprotkb/P38789" } ], "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": "TQSEKTGNVSLKIARTPQGP", "down_seq": "VTFQVLDYSLGRDIKKFLKR", "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": "Thr106", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "106", "end_pos": "106" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "301", "end_pos": "301" } ] } ], "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": "P38789-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "P38789-1", "length": 453, "uniprot_id": "SSF1_YEAST", "protein_name": "Ribosome biogenesis protein SSF1", "refseq_ac": "NP_011933", "refseq_name": "rRNA-binding ribosome biosynthesis protein", "gene_name": "SSF1", "gene_names_uniprotkb": "SSF1", "gene_names_refseq": "SSF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38789", "url": "https://www.uniprot.org/uniprotkb/P38789" } ], "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": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "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": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "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": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001108", "url": "https://www.yeastgenome.org/locus/S000001108", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789", "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": "MAKRRQKKRTHAQL", "down_seq": "PEQEQGIPKSMVIRVGQTSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001108", "url": "https://www.yeastgenome.org/locus/S000001108" }, { "database": "iPTMnet", "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" }, { "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": "Thr15" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "106", "end_pos": "106" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "301", "end_pos": "301" } ] } ], "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": "P38789-1.254.254", "start_pos": 254, "end_pos": 254, "uniprot_canonical_ac": "P38789-1", "length": 453, "uniprot_id": "SSF1_YEAST", "protein_name": "Ribosome biogenesis protein SSF1", "refseq_ac": "NP_011933", "refseq_name": "rRNA-binding ribosome biosynthesis protein", "gene_name": "SSF1", "gene_names_uniprotkb": "SSF1", "gene_names_refseq": "SSF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38789", "url": "https://www.uniprot.org/uniprotkb/P38789" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001108", "url": "https://www.yeastgenome.org/locus/S000001108", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789", "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": "PNLHRKEDISSLILDHDLGA", "down_seq": "TSESEIEDDAIVRVVDNQDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001108", "url": "https://www.yeastgenome.org/locus/S000001108" }, { "database": "iPTMnet", "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr254" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "106", "end_pos": "106" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "301", "end_pos": "301" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38789-1.256.256", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38789-1.256.256", "start_pos": 256, "end_pos": 256, "uniprot_canonical_ac": "P38789-1", "length": 453, "uniprot_id": "SSF1_YEAST", "protein_name": "Ribosome biogenesis protein SSF1", "refseq_ac": "NP_011933", "refseq_name": "rRNA-binding ribosome biosynthesis protein", "gene_name": "SSF1", "gene_names_uniprotkb": "SSF1", "gene_names_refseq": "SSF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38789", "url": "https://www.uniprot.org/uniprotkb/P38789" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001108", "url": "https://www.yeastgenome.org/locus/S000001108", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789", "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": "LHRKEDISSLILDHDLGAYT", "down_seq": "ESEIEDDAIVRVVDNQDVKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001108", "url": "https://www.yeastgenome.org/locus/S000001108" }, { "database": "iPTMnet", "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser256" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "106", "end_pos": "106" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "301", "end_pos": "301" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38789-1.254.254", "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": "P38789-1.301.301", "start_pos": 301, "end_pos": 301, "uniprot_canonical_ac": "P38789-1", "length": 453, "uniprot_id": "SSF1_YEAST", "protein_name": "Ribosome biogenesis protein SSF1", "refseq_ac": "NP_011933", "refseq_name": "rRNA-binding ribosome biosynthesis protein", "gene_name": "SSF1", "gene_names_uniprotkb": "SSF1", "gene_names_refseq": "SSF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38789", "url": "https://www.uniprot.org/uniprotkb/P38789" } ], "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": "P38789", "url": "https://www.uniprot.org/uniprotkb/P38789" }, { "database": "iPTMnet", "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "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": "P38789", "url": "https://www.uniprot.org/uniprotkb/P38789" }, { "database": "iPTMnet", "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "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": "iPTMnet", "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "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": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "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": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "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": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "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": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38789", "url": "https://www.uniprot.org/uniprotkb/P38789", "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": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001108", "url": "https://www.yeastgenome.org/locus/S000001108", "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": "T", "start_aa": "T", "up_seq": "SLKSQRTPVEKKDNKEREKE", "down_seq": "EEEDVEMEEPKPSENLQPTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P38789", "url": "https://www.uniprot.org/uniprotkb/P38789" }, { "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": "P38789", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38789" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001108", "url": "https://www.yeastgenome.org/locus/S000001108" }, { "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": "Thr301" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "106", "end_pos": "106" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "301", "end_pos": "301" } ] } ], "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.994.994", "start_pos": 994, "end_pos": 994, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "IDAIADFKINGMPEDVPLSV", "down_seq": "PGIQSALNILQSYKSDIHYR", "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": "Thr994", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.241.241", "start_pos": 241, "end_pos": 241, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of HAT complexes by direct activator interactions with the ATM-related Tra1 subunit.", "journal": "Science (New York, N.Y.)", "date": "2001-06-22", "authors": "Brown C E, Howe L, Sousa K, Alley S C, Carrozza M J, Tan S, Workman J L", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "reference": [ { "type": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "crossref": [ { "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "FKILSECPITMVTLYSSYKQ", "down_seq": "TSTSLPEFTPLIMNLLNIQI", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "S", "comment": "In TRA1-2; when associated with L-604; R-2733; P-3145; S-3222 and G-3302. Defects in its ability to interact with acidic activators.", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.2733.2733", "start_pos": 2733, "end_pos": 2733, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of HAT complexes by direct activator interactions with the ATM-related Tra1 subunit.", "journal": "Science (New York, N.Y.)", "date": "2001-06-22", "authors": "Brown C E, Howe L, Sousa K, Alley S C, Carrozza M J, Tan S, Workman J L", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "reference": [ { "type": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "crossref": [ { "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "KARSGALPYSQSEYALWEDN", "down_seq": "IQCAEKLQHWDVLTELAKHE", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "R", "comment": "In TRA1-2; when associated with S-241; L-604; P-3145; S-3222 and G-3302. Defects in its ability to interact with acidic activators.", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.3145.3145", "start_pos": 3145, "end_pos": 3145, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of HAT complexes by direct activator interactions with the ATM-related Tra1 subunit.", "journal": "Science (New York, N.Y.)", "date": "2001-06-22", "authors": "Brown C E, Howe L, Sousa K, Alley S C, Carrozza M J, Tan S, Workman J L", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "reference": [ { "type": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "crossref": [ { "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RGEIPVWYWITFIPQLLTSL", "down_seq": "HKEANMVRHILIRIAKSYPQ", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "P", "comment": "In TRA1-2; when associated with S-241; L-604; R-2733; S-3222 and G-3302. Defects in its ability to interact with acidic activators.", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.3222.3222", "start_pos": 3222, "end_pos": 3222, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of HAT complexes by direct activator interactions with the ATM-related Tra1 subunit.", "journal": "Science (New York, N.Y.)", "date": "2001-06-22", "authors": "Brown C E, Howe L, Sousa K, Alley S C, Carrozza M J, Tan S, Workman J L", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "reference": [ { "type": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "crossref": [ { "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "RQPWEYLQELNNILKTAYPL", "down_seq": "ALSLESLVAQINDRFKSTTD", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "S", "comment": "In TRA1-2; when associated with S-241; L-604; R-2733; P-3145 and G-3302. Defects in its ability to interact with acidic activators.", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.3302.3302", "start_pos": 3302, "end_pos": 3302, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of HAT complexes by direct activator interactions with the ATM-related Tra1 subunit.", "journal": "Science (New York, N.Y.)", "date": "2001-06-22", "authors": "Brown C E, Howe L, Sousa K, Alley S C, Carrozza M J, Tan S, Workman J L", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "reference": [ { "type": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "crossref": [ { "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "KFSTTLLAPYIRPKFNADFI", "down_seq": "NKPDYETYIKRLRYWRRRLE", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "G", "comment": "In TRA1-2; when associated with S-241; L-604; R-2733; P-3145 and S-3222. Defects in its ability to interact with acidic activators.", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.604.604", "start_pos": 604, "end_pos": 604, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Recruitment of HAT complexes by direct activator interactions with the ATM-related Tra1 subunit.", "journal": "Science (New York, N.Y.)", "date": "2001-06-22", "authors": "Brown C E, Howe L, Sousa K, Alley S C, Carrozza M J, Tan S, Workman J L", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "reference": [ { "type": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "crossref": [ { "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "FYLYRTLMSFLKTIIHDLKV", "down_seq": "NPPPNEYTVANPKLWASVSR", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "L", "comment": "In TRA1-2; when associated with S-241; R-2733; P-3145; S-3222 and G-3302. Defects in its ability to interact with acidic activators.", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "PubMed", "id": "11423663", "url": "https://glygen.org/publication/PubMed/11423663" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.1022.1022", "start_pos": 1022, "end_pos": 1022, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "NILQSYKSDIHYRKSAYKYL", "down_seq": "CVLLLMTKSSAEFPTNYTEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr1022" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P38811-1.1029.1029", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.1029.1029", "start_pos": 1029, "end_pos": 1029, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "SDIHYRKSAYKYLTCVLLLM", "down_seq": "KSSAEFPTNYTELLKTAVNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr1029" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P38811-1.1022.1022", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.1225.1225", "start_pos": 1225, "end_pos": 1225, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "TYYNKRGGVLGIKVLIDNVK", "down_seq": "SSVFLKKYQYNLANGLLFVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1225" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38811-1.1226.1226", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38811-1.1227.1227", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.1226.1226", "start_pos": 1226, "end_pos": 1226, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "YYNKRGGVLGIKVLIDNVKS", "down_seq": "SVFLKKYQYNLANGLLFVLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1226" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38811-1.1225.1225", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38811-1.1227.1227", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.1227.1227", "start_pos": 1227, "end_pos": 1227, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "YNKRGGVLGIKVLIDNVKSS", "down_seq": "VFLKKYQYNLANGLLFVLKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1227" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38811-1.1225.1225", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38811-1.1226.1226", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.1297.1297", "start_pos": 1297, "end_pos": 1297, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEDLGNKVLENTLTDIVCEL", "down_seq": "NANPKVRNACQKSLHTISNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" } ], "site_lbl": "Ser1297" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.12.12", "start_pos": 12, "end_pos": 12, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "MSLTEQIEQFA", "down_seq": "RFRDDDATLQSRYSTLSELY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser12" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P38811-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38811-1.23.23", "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": "P38811-1.1466.1466", "start_pos": 1466, "end_pos": 1466, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "KTMLKTSPEIINTTYEALKG", "down_seq": "LAENSKLPKELLQNGLKPLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Ser1466" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.172.172", "start_pos": 172, "end_pos": 172, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811", "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "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": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "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": "PNLINQTFYEAGKAEQGDLD", "down_seq": "PKEPQADELLDEFSKNDEEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "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": "Ser172" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.200.200", "start_pos": 200, "end_pos": 200, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "ELLDEFSKNDEEKDFPSKQS", "down_seq": "TEPRFENSTSSNGLRSSMFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser200" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.2053.2053", "start_pos": 2053, "end_pos": 2053, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SLILYWENKTLEITNVNNTK", "down_seq": "DSDGDVVMSDSKSDINPVEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" } ], "site_lbl": "Thr2053" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P38811-1.2055.2055", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38811-1.2062.2062", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38811-1.2064.2064", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.2055.2055", "start_pos": 2055, "end_pos": 2055, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "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": "ILYWENKTLEITNVNNTKTD", "down_seq": "DGDVVMSDSKSDINPVEADT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2055" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P38811-1.2053.2053", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P38811-1.2062.2062", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38811-1.2064.2064", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.2062.2062", "start_pos": 2062, "end_pos": 2062, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "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": "TLEITNVNNTKTDSDGDVVM", "down_seq": "DSKSDINPVEADTTAIIVDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2062" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P38811-1.2053.2053", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P38811-1.2055.2055", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38811-1.2064.2064", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38811-1.2064.2064", "start_pos": 2064, "end_pos": 2064, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "EITNVNNTKTDSDGDVVMSD", "down_seq": "KSDINPVEADTTAIIVDANN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser2064" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P38811-1.2053.2053", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38811-1.2055.2055", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38811-1.2062.2062", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "LTEQIEQFASRFRDDDATLQ", "down_seq": "RYSTLSELYDIMELLNSPED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser23" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P38811-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38811-1.12.12", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.2788.2788", "start_pos": 2788, "end_pos": 2788, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "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": "DWNSDRDALEQSVKSVMDVP", "down_seq": "PRRQMFKTFLALQNFAESRK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "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": "Thr2788" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": "P38811-1.3440.3440", "start_pos": 3440, "end_pos": 3440, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "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": "FQLYRLFNKSLSKNVETRRR", "down_seq": "IQFNLPIAIPLSPQVRIMND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser3440" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P38811-1.3452.3452", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.3452.3452", "start_pos": 3452, "end_pos": 3452, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "KNVETRRRSIQFNLPIAIPL", "down_seq": "PQVRIMNDSVSFTTLHEIHN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser3452" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38811-1.3440.3440", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38811-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "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": "MSL", "down_seq": "EQIEQFASRFRDDDATLQSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr4" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P38811-1.12.12", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P38811-1.23.23", "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": "P38811-1.542.542", "start_pos": 542, "end_pos": 542, "uniprot_canonical_ac": "P38811-1", "length": 3744, "uniprot_id": "TRA1_YEAST", "protein_name": "SAGA complex/NuA4 acetyltransferase complex subunit TRA1", "refseq_ac": "NP_011967", "refseq_name": "histone acetyltransferase TRA1", "gene_name": "TRA1", "gene_names_uniprotkb": "TRA1", "gene_names_refseq": "TRA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" } ], "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": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811", "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141", "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": "LEPSDDDHLMPQPKKEDIND", "down_seq": "PDVEMTESDKVVKNDVEMFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P38811", "url": "https://www.uniprot.org/uniprotkb/P38811" }, { "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": "P38811", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38811" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001141", "url": "https://www.yeastgenome.org/locus/S000001141" }, { "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": "Ser542" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "994", "end_pos": "994" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "241", "end_pos": "241" }, { "start_pos": "2733", "end_pos": "2733" }, { "start_pos": "3145", "end_pos": "3145" }, { "start_pos": "3222", "end_pos": "3222" }, { "start_pos": "3302", "end_pos": "3302" }, { "start_pos": "604", "end_pos": "604" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1022", "end_pos": "1022" }, { "start_pos": "1029", "end_pos": "1029" }, { "start_pos": "1225", "end_pos": "1225" }, { "start_pos": "1226", "end_pos": "1226" }, { "start_pos": "1227", "end_pos": "1227" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "2053", "end_pos": "2053" }, { "start_pos": "2055", "end_pos": "2055" }, { "start_pos": "2062", "end_pos": "2062" }, { "start_pos": "2064", "end_pos": "2064" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2788", "end_pos": "2788" }, { "start_pos": "3440", "end_pos": "3440" }, { "start_pos": "3452", "end_pos": "3452" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "542", "end_pos": "542" } ] } ], "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38873-1.256.256", "start_pos": 256, "end_pos": 256, "uniprot_canonical_ac": "P38873-1", "length": 1557, "uniprot_id": "KOG1_YEAST", "protein_name": "Target of rapamycin complex 1 subunit KOG1", "refseq_ac": "NP_012056", "refseq_name": "ubiquitin-binding TORC1 subunit KOG1", "gene_name": "KOG1", "gene_names_uniprotkb": "KOG1; H9998.14; LAS24", "gene_names_refseq": "KOG1; LAS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" } ], "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": "VQKRIKDDEEGNHDVAAPSP", "down_seq": "SAYQDCFQLASCTSDELLLM", "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": "Thr256", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "256", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "503", "end_pos": "503" } ] } ], "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": "P38873-1.1031.1031", "start_pos": 1031, "end_pos": 1031, "uniprot_canonical_ac": "P38873-1", "length": 1557, "uniprot_id": "KOG1_YEAST", "protein_name": "Target of rapamycin complex 1 subunit KOG1", "refseq_ac": "NP_012056", "refseq_name": "ubiquitin-binding TORC1 subunit KOG1", "gene_name": "KOG1", "gene_names_uniprotkb": "KOG1; H9998.14; LAS24", "gene_names_refseq": "KOG1; LAS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873", "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": "EKFLLKRSSKAHQTGKFGFN", "down_seq": "SQVQFVKSSLRSFSPNERVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser1031" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "256", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "503", "end_pos": "503" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P38873-1.1032.1032", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38873-1.1045.1045", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38873-1.1032.1032", "start_pos": 1032, "end_pos": 1032, "uniprot_canonical_ac": "P38873-1", "length": 1557, "uniprot_id": "KOG1_YEAST", "protein_name": "Target of rapamycin complex 1 subunit KOG1", "refseq_ac": "NP_012056", "refseq_name": "ubiquitin-binding TORC1 subunit KOG1", "gene_name": "KOG1", "gene_names_uniprotkb": "KOG1; H9998.14; LAS24", "gene_names_refseq": "KOG1; LAS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873", "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": "KFLLKRSSKAHQTGKFGFNS", "down_seq": "QVQFVKSSLRSFSPNERVDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229" }, { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1032" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "256", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "503", "end_pos": "503" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P38873-1.1031.1031", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38873-1.1045.1045", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38873-1.1045.1045", "start_pos": 1045, "end_pos": 1045, "uniprot_canonical_ac": "P38873-1", "length": 1557, "uniprot_id": "KOG1_YEAST", "protein_name": "Target of rapamycin complex 1 subunit KOG1", "refseq_ac": "NP_012056", "refseq_name": "ubiquitin-binding TORC1 subunit KOG1", "gene_name": "KOG1", "gene_names_uniprotkb": "KOG1; H9998.14; LAS24", "gene_names_refseq": "KOG1; LAS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873", "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": "GKFGFNSSQVQFVKSSLRSF", "down_seq": "PNERVDNNAFKKEQQQHDPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229" }, { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" }, { "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": "Ser1045" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "256", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "503", "end_pos": "503" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38873-1.1031.1031", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38873-1.1032.1032", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38873-1.478.478", "start_pos": 478, "end_pos": 478, "uniprot_canonical_ac": "P38873-1", "length": 1557, "uniprot_id": "KOG1_YEAST", "protein_name": "Target of rapamycin complex 1 subunit KOG1", "refseq_ac": "NP_012056", "refseq_name": "ubiquitin-binding TORC1 subunit KOG1", "gene_name": "KOG1", "gene_names_uniprotkb": "KOG1; H9998.14; LAS24", "gene_names_refseq": "KOG1; LAS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229", "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": "QETLQNGGSSKSNAQDTKAG", "down_seq": "IQTQSRFAVANLSTMSLVNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "SGD", "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229" }, { "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": "Ser478" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "256", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "503", "end_pos": "503" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P38873-1.481.481", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38873-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P38873-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P38873-1.494.494", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38873-1.481.481", "start_pos": 481, "end_pos": 481, "uniprot_canonical_ac": "P38873-1", "length": 1557, "uniprot_id": "KOG1_YEAST", "protein_name": "Target of rapamycin complex 1 subunit KOG1", "refseq_ac": "NP_012056", "refseq_name": "ubiquitin-binding TORC1 subunit KOG1", "gene_name": "KOG1", "gene_names_uniprotkb": "KOG1; H9998.14; LAS24", "gene_names_refseq": "KOG1; LAS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229", "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": "LQNGGSSKSNAQDTKAGSIQ", "down_seq": "QSRFAVANLSTMSLVNNPAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "SGD", "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr481" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "256", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "503", "end_pos": "503" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P38873-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P38873-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38873-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P38873-1.494.494", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38873-1.491.491", "start_pos": 491, "end_pos": 491, "uniprot_canonical_ac": "P38873-1", "length": 1557, "uniprot_id": "KOG1_YEAST", "protein_name": "Target of rapamycin complex 1 subunit KOG1", "refseq_ac": "NP_012056", "refseq_name": "ubiquitin-binding TORC1 subunit KOG1", "gene_name": "KOG1", "gene_names_uniprotkb": "KOG1; H9998.14; LAS24", "gene_names_refseq": "KOG1; LAS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Snf1/AMPK promotes the formation of Kog1/Raptor-bodies to increase the activation threshold of TORC1 in budding yeast.", "journal": "eLife", "date": "2015-10-06", "authors": "Hughes Hallett James E, Luo Xiangxia, Capaldi Andrew P", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "26439012", "url": "https://glygen.org/publication/PubMed/26439012" } ] }, { "title": "Kog1/Raptor mediates metabolic rewiring during nutrient limitation by controlling SNF1/AMPK activity.", "journal": "Science advances", "date": "2021-04", "authors": "Rashida Zeenat, Srinivasan Rajalakshmi, Cyanam Meghana, Laxman Sunil", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33853774", "url": "https://glygen.org/publication/PubMed/33853774" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "26439012", "url": "https://glygen.org/publication/PubMed/26439012", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33853774", "url": "https://glygen.org/publication/PubMed/33853774", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229", "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": "AQDTKAGSIQTQSRFAVANL", "down_seq": "TMSLVNNPALQSRKSISLQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "26439012", "url": "https://glygen.org/publication/PubMed/26439012" }, { "database": "PubMed", "id": "33853774", "url": "https://glygen.org/publication/PubMed/33853774" }, { "database": "SGD", "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229" }, { "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": "glycosylation", "site_list": [ { "start_pos": "256", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "503", "end_pos": "503" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P38873-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P38873-1.481.481", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P38873-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P38873-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P38873-1.503.503", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38873-1.492.492", "start_pos": 492, "end_pos": 492, "uniprot_canonical_ac": "P38873-1", "length": 1557, "uniprot_id": "KOG1_YEAST", "protein_name": "Target of rapamycin complex 1 subunit KOG1", "refseq_ac": "NP_012056", "refseq_name": "ubiquitin-binding TORC1 subunit KOG1", "gene_name": "KOG1", "gene_names_uniprotkb": "KOG1; H9998.14; LAS24", "gene_names_refseq": "KOG1; LAS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" } ], "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": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" }, { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229", "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": "QDTKAGSIQTQSRFAVANLS", "down_seq": "MSLVNNPALQSRKSISLQSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr492" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "256", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "503", "end_pos": "503" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P38873-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38873-1.481.481", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P38873-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P38873-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P38873-1.503.503", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38873-1.494.494", "start_pos": 494, "end_pos": 494, "uniprot_canonical_ac": "P38873-1", "length": 1557, "uniprot_id": "KOG1_YEAST", "protein_name": "Target of rapamycin complex 1 subunit KOG1", "refseq_ac": "NP_012056", "refseq_name": "ubiquitin-binding TORC1 subunit KOG1", "gene_name": "KOG1", "gene_names_uniprotkb": "KOG1; H9998.14; LAS24", "gene_names_refseq": "KOG1; LAS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Snf1/AMPK promotes the formation of Kog1/Raptor-bodies to increase the activation threshold of TORC1 in budding yeast.", "journal": "eLife", "date": "2015-10-06", "authors": "Hughes Hallett James E, Luo Xiangxia, Capaldi Andrew P", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "26439012", "url": "https://glygen.org/publication/PubMed/26439012" } ] }, { "title": "Kog1/Raptor mediates metabolic rewiring during nutrient limitation by controlling SNF1/AMPK activity.", "journal": "Science advances", "date": "2021-04", "authors": "Rashida Zeenat, Srinivasan Rajalakshmi, Cyanam Meghana, Laxman Sunil", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33853774", "url": "https://glygen.org/publication/PubMed/33853774" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "26439012", "url": "https://glygen.org/publication/PubMed/26439012", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33853774", "url": "https://glygen.org/publication/PubMed/33853774", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229", "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": "TKAGSIQTQSRFAVANLSTM", "down_seq": "LVNNPALQSRKSISLQSSQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "26439012", "url": "https://glygen.org/publication/PubMed/26439012" }, { "database": "PubMed", "id": "33853774", "url": "https://glygen.org/publication/PubMed/33853774" }, { "database": "SGD", "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229" }, { "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": "glycosylation", "site_list": [ { "start_pos": "256", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "503", "end_pos": "503" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P38873-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P38873-1.481.481", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P38873-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P38873-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P38873-1.503.503", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P38873-1.503.503", "start_pos": 503, "end_pos": 503, "uniprot_canonical_ac": "P38873-1", "length": 1557, "uniprot_id": "KOG1_YEAST", "protein_name": "Target of rapamycin complex 1 subunit KOG1", "refseq_ac": "NP_012056", "refseq_name": "ubiquitin-binding TORC1 subunit KOG1", "gene_name": "KOG1", "gene_names_uniprotkb": "KOG1; H9998.14; LAS24", "gene_names_refseq": "KOG1; LAS24", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38873", "url": "https://www.uniprot.org/uniprotkb/P38873" } ], "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": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873", "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": "SRFAVANLSTMSLVNNPALQ", "down_seq": "RKSISLQSSQQQLQQQQQQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001229", "url": "https://www.yeastgenome.org/locus/S000001229" }, { "database": "iPTMnet", "id": "P38873", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38873" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser503" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "256", "end_pos": "256" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1045", "end_pos": "1045" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "503", "end_pos": "503" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P38873-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P38873-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P38873-1.494.494", "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": "P38886-1.116.116", "start_pos": 116, "end_pos": 116, "uniprot_canonical_ac": "P38886-1", "length": 268, "uniprot_id": "RPN10_YEAST", "protein_name": "26S proteasome regulatory subunit RPN10", "refseq_ac": "NP_012070", "refseq_name": "proteasome regulatory particle base subunit RPN10", "gene_name": "RPN10", "gene_names_uniprotkb": "RPN10; MCB1; SUN1", "gene_names_refseq": "MCB1; RPN10; SUN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38886", "url": "https://www.uniprot.org/uniprotkb/P38886" } ], "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": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001243", "url": "https://www.yeastgenome.org/locus/S000001243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886", "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": "LTLKHRQNKVQHQRIVAFVC", "down_seq": "PISDSRDELIRLAKTLKKNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001243", "url": "https://www.yeastgenome.org/locus/S000001243" }, { "database": "iPTMnet", "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser116" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "43", "end_pos": "43" } ] } ], "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": "P38886-1.205.205", "start_pos": 205, "end_pos": 205, "uniprot_canonical_ac": "P38886-1", "length": 268, "uniprot_id": "RPN10_YEAST", "protein_name": "26S proteasome regulatory subunit RPN10", "refseq_ac": "NP_012070", "refseq_name": "proteasome regulatory particle base subunit RPN10", "gene_name": "RPN10", "gene_names_uniprotkb": "RPN10; MCB1; SUN1", "gene_names_refseq": "MCB1; RPN10; SUN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38886", "url": "https://www.uniprot.org/uniprotkb/P38886" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001243", "url": "https://www.yeastgenome.org/locus/S000001243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886", "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": "IASSPIILEEGSSGMGAFGG", "down_seq": "GGDSDANGTFMDFGVDPSMD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001243", "url": "https://www.yeastgenome.org/locus/S000001243" }, { "database": "iPTMnet", "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser205" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "43", "end_pos": "43" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P38886-1.209.209", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P38886-1.209.209", "start_pos": 209, "end_pos": 209, "uniprot_canonical_ac": "P38886-1", "length": 268, "uniprot_id": "RPN10_YEAST", "protein_name": "26S proteasome regulatory subunit RPN10", "refseq_ac": "NP_012070", "refseq_name": "proteasome regulatory particle base subunit RPN10", "gene_name": "RPN10", "gene_names_uniprotkb": "RPN10; MCB1; SUN1", "gene_names_refseq": "MCB1; RPN10; SUN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38886", "url": "https://www.uniprot.org/uniprotkb/P38886" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001243", "url": "https://www.yeastgenome.org/locus/S000001243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886", "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": "PIILEEGSSGMGAFGGSGGD", "down_seq": "DANGTFMDFGVDPSMDPELA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001243", "url": "https://www.yeastgenome.org/locus/S000001243" }, { "database": "iPTMnet", "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser209" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "43", "end_pos": "43" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P38886-1.205.205", "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": "P38886-1.235.235", "start_pos": 235, "end_pos": 235, "uniprot_canonical_ac": "P38886-1", "length": 268, "uniprot_id": "RPN10_YEAST", "protein_name": "26S proteasome regulatory subunit RPN10", "refseq_ac": "NP_012070", "refseq_name": "proteasome regulatory particle base subunit RPN10", "gene_name": "RPN10", "gene_names_uniprotkb": "RPN10; MCB1; SUN1", "gene_names_refseq": "MCB1; RPN10; SUN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P38886", "url": "https://www.uniprot.org/uniprotkb/P38886" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001243", "url": "https://www.yeastgenome.org/locus/S000001243", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886", "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": "FMDFGVDPSMDPELAMALRL", "down_seq": "MEEEQQRQERLRQQQQQQDQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001243", "url": "https://www.yeastgenome.org/locus/S000001243" }, { "database": "iPTMnet", "id": "P38886", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P38886" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser235" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "116", "end_pos": "116" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "209", "end_pos": "209" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "43", "end_pos": "43" } ] } ], "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" ] } ] } ]